Blm BLM RecQ like helicase [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Blmprovided by RGD
Official Full Name: BLM RecQ like helicaseprovided by RGD
Primary source: RGD:1308810
See related: Ensembl:ENSRNOG00000011213 AllianceGenome:RGD:1308810
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable several functions, including ATP binding activity; DNA binding activity; and DNA helicase activity. Predicted to be involved in several processes, including DNA geometric change; DNA metabolic process; and regulation of cellular macromolecule biosynthetic process. Predicted to act upstream of or within several processes, including negative regulation of thymocyte apoptotic process; regulation of DNA recombination; and replication-born double-strand break repair via sister chromatid exchange. Predicted to be located in cytosol; nucleus; and replication fork. Predicted to be part of protein-containing complex. Predicted to be active in chromosome; cytoplasm; and nucleus. Predicted to colocalize with PML body and chromosome, telomeric region. Human ortholog(s) of this gene implicated in Bloom syndrome. Orthologous to human BLM (BLM RecQ like helicase). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Spleen (RPKM 115.2), Thymus (RPKM 77.2) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1q31

Exon count:: 23

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (143819072..143905300, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (134409832..134496073, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (142246773..142332616, complement)

Chromosome 1 - NC_086019.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables 3'-5' DNA helicase activity	IBA Inferred from Biological aspect of Ancestor more info
enables 3'-5' DNA helicase activity	ISO Inferred from Sequence Orthology more info
enables 8-hydroxy-2'-deoxyguanosine DNA binding	ISO Inferred from Sequence Orthology more info
enables ATP binding	ISO Inferred from Sequence Orthology more info
enables ATP-dependent activity, acting on DNA	ISO Inferred from Sequence Orthology more info
enables DNA binding	ISO Inferred from Sequence Orthology more info
enables DNA helicase activity	ISO Inferred from Sequence Orthology more info
enables DNA/DNA annealing activity	ISO Inferred from Sequence Orthology more info
enables G-quadruplex DNA binding	ISO Inferred from Sequence Orthology more info
enables Y-form DNA binding	ISO Inferred from Sequence Orthology more info
enables bubble DNA binding	ISO Inferred from Sequence Orthology more info
enables forked DNA-dependent helicase activity	ISO Inferred from Sequence Orthology more info
enables four-way junction DNA binding	ISO Inferred from Sequence Orthology more info
enables four-way junction helicase activity	IBA Inferred from Biological aspect of Ancestor more info
enables four-way junction helicase activity	ISO Inferred from Sequence Orthology more info
enables helicase activity	ISO Inferred from Sequence Orthology more info
enables hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	IEA Inferred from Electronic Annotation more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables isomerase activity	IEA Inferred from Electronic Annotation more info
enables molecular function activator activity	ISO Inferred from Sequence Orthology more info
enables p53 binding	ISO Inferred from Sequence Orthology more info
enables protein homodimerization activity	ISO Inferred from Sequence Orthology more info
enables single-stranded DNA binding	ISO Inferred from Sequence Orthology more info
enables telomeric D-loop binding	ISO Inferred from Sequence Orthology more info
enables telomeric G-quadruplex DNA binding	ISO Inferred from Sequence Orthology more info
enables zinc ion binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within DN4 thymocyte differentiation	ISO Inferred from Sequence Orthology more info
involved_in DNA damage response	ISO Inferred from Sequence Orthology more info
involved_in DNA double-strand break processing	ISO Inferred from Sequence Orthology more info
involved_in DNA duplex unwinding	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within DNA repair	ISO Inferred from Sequence Orthology more info
involved_in DNA replication	ISO Inferred from Sequence Orthology more info
involved_in DNA unwinding involved in DNA replication	IBA Inferred from Biological aspect of Ancestor more info
involved_in G-quadruplex DNA unwinding	IBA Inferred from Biological aspect of Ancestor more info
involved_in G-quadruplex DNA unwinding	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within alpha-beta T cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of alpha-beta T cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in biological_process	ND No biological Data available more info
involved_in cellular response to camptothecin	ISO Inferred from Sequence Orthology more info
involved_in cellular response to hydroxyurea	ISO Inferred from Sequence Orthology more info
involved_in cellular response to ionizing radiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cellular response to xenobiotic stimulus	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within chromosome organization	ISO Inferred from Sequence Orthology more info
involved_in double-strand break repair via homologous recombination	IBA Inferred from Biological aspect of Ancestor more info
involved_in double-strand break repair via homologous recombination	ISO Inferred from Sequence Orthology more info
acts_upstream_of immature T cell proliferation in thymus	ISO Inferred from Sequence Orthology more info
involved_in mitotic G2 DNA damage checkpoint signaling	ISO Inferred from Sequence Orthology more info
acts_upstream_of mitotic recombination	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA recombination	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell division	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of mitotic recombination	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of mitotic recombination	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of thymocyte apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of alpha-beta T cell proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of double-strand break repair via homologous recombination	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of immature T cell proliferation in thymus	ISO Inferred from Sequence Orthology more info
involved_in protein complex oligomerization	ISO Inferred from Sequence Orthology more info
involved_in protein homooligomerization	ISO Inferred from Sequence Orthology more info
involved_in regulation of DNA-templated DNA replication	ISO Inferred from Sequence Orthology more info
involved_in replication fork processing	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within replication-born double-strand break repair via sister chromatid exchange	ISO Inferred from Sequence Orthology more info
involved_in resolution of DNA recombination intermediates	ISO Inferred from Sequence Orthology more info
involved_in response to X-ray	ISO Inferred from Sequence Orthology more info
involved_in telomere maintenance	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within telomere maintenance	ISO Inferred from Sequence Orthology more info
involved_in telomeric D-loop disassembly	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in PML body	ISO Inferred from Sequence Orthology more info
part_of RecQ family helicase-topoisomerase III complex	ISO Inferred from Sequence Orthology more info
is_active_in chromosome	IBA Inferred from Biological aspect of Ancestor more info
located_in chromosome, telomeric region	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in lateral element	ISO Inferred from Sequence Orthology more info
located_in male germ cell nucleus	ISO Inferred from Sequence Orthology more info
located_in nuclear chromosome	ISO Inferred from Sequence Orthology more info
located_in nuclear matrix	ISO Inferred from Sequence Orthology more info
located_in nucleolus	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in pronucleus	ISO Inferred from Sequence Orthology more info
part_of protein-containing complex	ISO Inferred from Sequence Orthology more info
located_in replication fork	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: recQ-like DNA helicase BLM

Names: Bloom syndrome RecQ like helicase; Bloom syndrome homolog; Bloom syndrome, RecQ helicase-like

NP_001413904.1

EC 3.6.4.12

XP_006229520.1

EC 3.6.4.12

XP_038956984.1

EC 3.6.4.12

XP_038956985.1

EC 3.6.4.12

XP_063118705.1

EC 3.6.4.12

XP_063118710.1

EC 3.6.4.12

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001426975.1 → NP_001413904.1 recQ-like DNA helicase BLM

Status: VALIDATED

Source sequence(s)

JAXUCZ010000001

UniProtKB/TrEMBL

D3ZQW1

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086019.1 Reference GRCr8

Range

143819072..143905300 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039101057.2 → XP_038956985.1 recQ-like DNA helicase BLM isoform X3

UniProtKB/TrEMBL

D3ZQW1

Conserved Domains (5) summary

smart00341
Location:1201 → 1281

HRDC; Helicase and RNase D C-terminal

TIGR00614
Location:649 → 1132

recQ_fam; ATP-dependent DNA helicase, RecQ family

pfam08072
Location:362 → 401

BDHCT; BDHCT (NUC031) domain

pfam16202
Location:1 → 356

BLM_N; N-terminal region of Bloom syndrome protein

pfam16204
Location:415 → 639

BDHCT_assoc; BDHCT-box associated domain on Bloom syndrome protein
XM_063262635.1 → XP_063118705.1 recQ-like DNA helicase BLM isoform X1

UniProtKB/TrEMBL

D3ZQW1
XM_039101056.2 → XP_038956984.1 recQ-like DNA helicase BLM isoform X2

UniProtKB/TrEMBL

D3ZQW1

Conserved Domains (5) summary

smart00341
Location:1209 → 1289

HRDC; Helicase and RNase D C-terminal

TIGR00614
Location:657 → 1140

recQ_fam; ATP-dependent DNA helicase, RecQ family

pfam08072
Location:370 → 409

BDHCT; BDHCT (NUC031) domain

pfam16202
Location:10 → 364

BLM_N; N-terminal region of Bloom syndrome protein

pfam16204
Location:423 → 647

BDHCT_assoc; BDHCT-box associated domain on Bloom syndrome protein
XM_006229458.5 → XP_006229520.1 recQ-like DNA helicase BLM isoform X4

UniProtKB/TrEMBL

D3ZQW1

Related

ENSRNOP00000015065.8

Conserved Domains (9) summary

smart00341
Location:1210 → 1290

HRDC; Helicase and RNase D C-terminal

TIGR00614
Location:658 → 1141

recQ_fam; ATP-dependent DNA helicase, RecQ family

smart00956
Location:1077 → 1179

RQC; This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure

cd00079
Location:862 → 993

HELICc; Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may ...

pfam00270
Location:670 → 842

DEAD; DEAD/DEAH box helicase

pfam08072
Location:371 → 408

BDHCT; BDHCT (NUC031) domain

pfam16124
Location:998 → 1067

RecQ_Zn_bind; RecQ zinc-binding

pfam16202
Location:10 → 365

BLM_N; N-terminal region of Bloom syndrome protein

pfam16204
Location:424 → 648

BDHCT_assoc; BDHCT-box associated domain on Bloom syndrome protein
XM_063262640.1 → XP_063118710.1 recQ-like DNA helicase BLM isoform X5

UniProtKB/TrEMBL

D3ZQW1

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_001107526.1: Suppressed sequence

Description

NM_001107526.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.