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Report for CCDS38942.2 (current version)

CCDS Status Species Chrom. Gene CCDS Release NCBI Annotation Release Ensembl Annotation Release Links
38942.2 Public Mus musculus 4 Prdm2 23 108 98 CCDS HistoryNCBI Gene:110593Re-query CCDS DB by CCDS ID:38942.2Re-query CCDS DB by GeneID:110593See the combined annotation on chromosome 4 in Sequence Viewer

Public Note for CCDS 38942.1
The coding region has been updated to extend the C-terminus to one that is more supported by available homology data and publications, and to represent an alternative exon 4 splice site that is supported by RT-PCR data in PMID:11544182 (via use of the RP157 primer) and by homology data. There are no full-length transcripts representing this update in mouse, but the update is well-supported by homologous proteins, including rat NP_001071116.1 and human NP_036363.2, and by functional support in PMIDs:11544182 and 15282304.

Public since: CCDS release 4, NCBI annotation release 37.1, Ensembl annotation release 47

Review status: Reviewed (by RefSeq, Havana and CCDS collaboration)

Sequence IDs included in CCDS 38942.2

Original Current Source Nucleotide ID Protein ID Status in CCDS Seq. Status Links
Original member Current member EBI ENSMUST00000105778.7 ENSMUSP00000101404.1 Accepted alive Link to Ensembl Transcript Viewer:ENSMUST00000105778.7Link to Ensembl Protein Viewer:ENSMUSP00000101404.1Re-query CCDS DB by Nucleotide ID:ENSMUST00000105778Re-query CCDS DB by Protein ID:ENSMUSP00000101404
Original member Current member NCBI NM_001081355.3 NP_001074824.3 Accepted alive Link to Nucleotide Sequence:NM_001081355.3Link to Protein Sequence:NP_001074824.3Re-query CCDS DB by Nucleotide ID:NM_001081355Re-query CCDS DB by Protein ID:NP_001074824Link to BLAST:NP_001074824.3

Chromosomal Locations for CCDS 38942.2

Assembly GRCm38.p6 (GCF_000001635.26)

On '-' strand of Chromosome 4 (NC_000070.6)
Genome Browser links: Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 4Link to Ensembl Genome Browser on chromosome 4See the combined annotation on chromosome 4 in Sequence Viewer

Chromosome Start Stop Links
4 143111657 143111777 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 4Link to Ensembl Genome Browser on chromosome 4
4 143131710 143136099 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 4Link to Ensembl Genome Browser on chromosome 4
4 143142124 143142234 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 4Link to Ensembl Genome Browser on chromosome 4
4 143162056 143162182 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 4Link to Ensembl Genome Browser on chromosome 4
4 143170036 143170188 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 4Link to Ensembl Genome Browser on chromosome 4
4 143179288 143179391 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 4Link to Ensembl Genome Browser on chromosome 4
4 143180877 143180991 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 4Link to Ensembl Genome Browser on chromosome 4
4 143194661 143194669 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 4Link to Ensembl Genome Browser on chromosome 4

CCDS Sequence Data
Blue highlighting indicates alternating exons.
Red highlighting indicates amino acids encoded across a splice junction.
 
Mouse over the nucleotide or protein sequence below and click on the highlighted codon or residue to select the pair.

Nucleotide Sequence (5130 nt):
ATGCATCAGAACACTGAGTCTGTGGCAGTCACTGAGACTCTGGCTGAGGTACCTGAACACGTGCTTCGAG
GACTTCCAGAGGAAGTAAGACTTTTACCATCTGCGGTCGACAAGACTCGGATTGGTGTCTGGGCCACTAA
ACCAATTTTAAAAGGGAAAAAGTTTGGGCCATTTGTTGGTGATAAGAAGAAGAGATCCCAGGTTAGGAAT
AATGTATACATGTGGGAGGTGTACTACCCAAATTTGGGGTGGATGTGCATTGATGCCACTGATCCGGAGA
AGGGCAACTGGCTCCGCTATGTGAACTGGGCTTGCTCAGGAGAAGAACAGAATTTATTTCCACTGGAAAT
CAACAGAGCCATTTACTATAAAACCTTAAAGCCAATCGCGCCTGGCGAGGAGCTCCTGGTCTGGTACAAT
GGGGAAGACAACCCCGAGATAGCAGCTGCGATTGAGGAAGAGCGAGCCAGCGCCCGGAGCAAGCGGAGCT
CCCCGAAGAGCCGGAGAGGGAAGAAGAAATCACAGGAGAATAAAAACAAAGGCGTCAGAACCCAGGCTGC
AGCGCGGAAGGCGAGCGAGCTGGACTCCACCTCTGCAAACATGAGGGGCTCTGCAGAAGGTCCAAAAGAA
GAGGATGAGAGGCCTTTGGCTTCTGCACCTGAGCAGCCAGCCCTTCTGCCAGAGGTGGTAAGCCAGGATG
CAGTTCCACAGGTGGCCATCCCTCTTCCTGCCTGCGAGTCACAGCCAGGGGCAGATGGGAAACAAGAAGT
CACAGACTGTGAGGTCAACAATATGAAGGAAGAGGAGGAGGAGGAGGAGGAGGAGCTGGAAGAGGAAGAA
GAGGAGGAGGAGTTGGGAGAAGATGGGGAGGAAGAAGCAGACATGCCGAATGAAAGCTCTGTGAAAGAAC
CAGAAATACGGTGTGAAGAAAAGCCAGAAGATTTACTGGAAGAGCCACGGAGTGTGCCAACTGAAACTTC
TGAAGGCTCCCCAGGCGCCACCCCTCCTCCCCACGCTCCCAGGGCTAGAGAGGAGGCCAACGGCGAGGGG
CTTGAAACATTCATGTTTCCATGTCAGCATTGTGAAAGGAAATTTGCAACGAAGCAGGGGCTAGAACGTC
ACATGCACATCCACATTTCTACAATCAACCACGCTTTCAAGTGCAAGTACTGTGGGAAACCATTTGGCAC
ACAGATCAACAGGAGGCGGCATGAAAGGCGCCACGAAACAGGGTTGAAGAGAAGACCCAGCATGGCATTA
CAATCCTCAGAGGACCCAGACGATGGCAAGGGGGAAAATGTTACTTCTAAAGATGAGTCGAGTCCACCTC
AACTTGGGCAAGACTGTTTGATATTGAACTCAGAGAAAACCTCACAGGAAATACTGAATTCATCTTTTGT
GGAAGAGAATGGTGAAGTTAAAGAACTTCACCCATGCAAATACTGCAAAAAGGTATTTGGAACTCACACC
AATATGAGACGACATCAGCGTAGAGTTCACGAACGCCACCTGATTCCCAAAGGTGTCCGGCGAAAAGGAG
GCCTCCTAGAAGAGCCGCAGCCACCTGCAGAGCAGGCCCCGCCCTCCCAGAATGTCTATGTACCAAGCAC
AGAGCCCGAGGAGGACGGGGACGCAGATGATGTGTATATCATGGACATTTCTAGCAACATCTCTGAGAAC
CTAAATTACTATATTGATGGTAAGATTCAGACCAACAACAGCACTAGTGATTGTGATGTGATTGAGATGG
AGTCTAACTCTGCACACTTGTATGGCATAGACTGTCTGCTCACTCCAGTAACTGTAGAGATTACTCAAAA
CATAAAGAGCACTCAGGGCTCTGTGACAGATGATCTTCTTAAAGAGTCTCCCAGTAGCACAAATTGCGAG
TCTAAGAAACGGAGGACTGCCAGTCCACCTGTACTCCCTAAAATTAAAGCAGAGACAGATTCTGATTCCA
CGGCACCCTCGTGTTCCTTAAGTCTGCCTCTGAGCATATCAACAACAGAGGTGGTGTCTTTCCATAAAGA
GAAGGGTGTCTATTTGTCTTCAAAGCTCAAGCAGCTTCTTCAGACCCAGGACAAACTGACTCCTCCTGCA
GGGATTTCAACAGCTGAGATTCCTAAGTTAGGTCCCGTGTGTGTATCTGCTCCTGCATCCATGTTAGCTG
TGACTTCTAGTAGGTTTAAGAGACGCACCAGCTCTCCCCCCAGTTCTCCACAGCACAGCCCTGCCCTTCG
AGACTTTGGGAAACAGAGTGATGGGAAAGCAGCATGGACAGACACAGCTCTGACTTCCAAGAAACCGAAG
TTAGAAAGTCGTAGTGACTCACCAGCGTGGAGTTTGTCTGGGAGAGATGAGAGAGAAACTGGAAGCCCTC
CTTGTTTTGATGAATACAAAATATCAAAAGAATGGGCAGCCAGTTCTACTTTCAGCAGCGTGTGCAACCA
ACAGCCGTTGGATTTATCCAGCGGTGTCAAACAGAAGTCAGAGGGCACAGGCAAGACTCCAGTCCCATGG
GAATCTGTATTGGATCTCAGTGTGCATAAAAAGCCTTGTGATTCTGAAGGCAAGGAATTCAAAGAGAACC
ATTTGGCACAGCCGGCTGCAAAGAAGAAAAAACCAACCACCTGCATGCTACAAAAGGTTCTTCTCAATGA
ATATAATGGTGTTAGCTTACCTACAGAAAGCACACCAGAGGCGACCAGGAGCCCAAGTCCTTGTAAATCA
CCAGACACACAGCCAGATCCTGAACTTGCTACTGACTCGAGTTGCTCAGCCCCCACTGCTGAGTCTCCAC
CTGAGGTTGTTGGCCCTTCATCACCCCCTCTCCAGGCAGCCTCCCTGTCCTCTGGTCAGCTGCCTCCTCT
CTTGATCCCCACAGAGCCTTCTTCCCCTCCGCCCTGCCCTCCTGTGTTAACTGTTGCCACTCCACCACCT
CCCCTCCTTCCGACTGTCCCTCTCCCCAACCCCTCTTGTGATGCCTCTCCTCAACAGTGCCCCTCTCCAT
TCTCAAATGCCACTGCTCAGTCTCCTCTTCCGATTCTCTCCCCAACAGTGTCCCCCTCTCCCTCTCCTAT
TCCTCCTGTAGAGCCACTCATGTCTGCTGCTTCCCCTGGTCCTCCGACACTTTCCTCCTCTTCCTCCTCC
TCTTCCTCCTCTTCCTTCTCTTCCTCTTCATGTTCCTCCTCCTCCCCCTCACCACCCCCTCTCTCAGCAG
TGTCATCTGTGGTGTCCTCTGGGGACAACCTGGAAGCATCTCTCCCTGCAATAACTCTCAAACAGGAGGA
GTCAGAGAGTGAAGGTCTGAAACGCAAGGAAGAGGCCCCAGCTGCAGGTGGGCAGAGCGCTGTCCAAGAG
ACATTCAGCAGAAACTTCGTCTGCAATGTGTGCGCATCACCTTTTCTTTCCATTAAAGACCTAACCAAAC
ATTTGTCTGTCCATGCTGAAGAATGGCCCTTCAAATGTGAGTTTTGTGTGCAGCTTTTTAAGGGTAAGAC
CGATCTATCAGAGCACCGATTTCTGCTTCATGGAGTCGGAAATATCTTTGTGTGTTCTGTATGTAAGAAA
GAATTTGCCTTCTTATGCAATTTACAGCAGCATCAGCGTGATCTCCACCCAGATGAGTTATGCACACACC
ACGAGTTTGAAAGTGGGACCCTGAGGCCCCAGAACTTCACAGACCCCAGCAAGGCCCATGTGGAGCATAT
GCCGAGTTTGCCAGAAGAGCCTGCGGAAGCTTCTAGAGAGGAGGAGTTAAATGACTCCTCTGAAGAGCTT
TACACGACCATCAAAATAATGGCTTCCGGAATAAAGACGAAAGAGCCAGATGTTCGACTTGGTCTCAACC
AGCATTACCCGAGCTTTAAGCCACCTCCATTTCAGTACCACCATCGAAACCCTATGGGGATTGGGGTAAC
AGCCACAAACTTCACCACCCACAATATCCCACAGACTTTCACTACTGCCATCCGCTGCACAAAGTGTGGC
AAGAGTGTTGATAACATGCCTGAGCTGCATAAGCACATCTTGGCGTGTGCATCTGCAAGTGACAAGAAGA
GGTACACTCCTAAGAAAAACCCAGTGCCGCTGAGACAGACGGTGCAGCCCAAAAATGGAGTGCTGGTTTT
AGACAACTCTGGGAAAAATGCCTTCAGACGGATGGGGCAGCCTAAGAGACTGAGCTTCAATGTTGAACTC
AGCAAAATGTCTCCAAATAAGCTCAAGCTAAATGCATTGAAGAAAAAAAATCAGCTGGTACAGAAAGCGA
TCCTTCAGAAGAACAGATCTGCGAAGCAGAAGGCAGACCTGAGGGACACTTCCGAGGCGTCCTCACATAT
CTGCCCTTACTGTGACAGGGAGTTCACGTACATCGGCAGCCTGAATAAGCATGCTGCTTTCAGCTGTCCT
AAAAAACCCCTTTCTCCTTCCAAAAGAAAAGTTTCTCATTCATCTAAGAAAGGTGGCCACACATCATCTG
CCAGCAGTGACAGAAACAGTAGTAGCAATCCCCGGAGGCGCACCGCAGATACGGAGATCAAGATGCAGAG
CATGCAGGCACCCTTGGGCAAGACCCGAGCTCGGAGTACAGGCCCTGCCCAAGCCTCGCTGCCCTCCTCA
TCCTTCAGATCCAGACAGAATGTCAAGTTTGCAGCTTCAGTCAAGTCCAAAAAAGCAAGCTCTTCATCCT
TGAGGAATTCTAGTCCCGTAAGAATGGCTAAGATTACTCATGTTGAGGGCAAAAAATCCAAAGCTGTTGC
CAAGAGTCATTCTACTCAGCTCTCAAGCAAAGCATCCCGAAGCCTGCACGTGAAGGTGCAGAAGAGCAAA
GCTGTTCTACAAAGCAAGACTGCCCTGGCCAGCAAGAAAAGAACAGACCGGTTCATAGTAAAATCTAGAG
AGCGGAGCGGGGGCCCAATCACCCGAAGCCTTCAGCTGGCAGCTGCTGCGGACCTGAGTGAAAGCAGGAG
AGAGGACAGCAGTGCCAGGCATGAGCTGAAGGACTTGAGCTACAGCCTCCGCCTGGCATCGCGATGCGCC
TCATCAACAGCCCCTTATATCACCAGACAATGCAGAAAGGTCAAGGCTGCAGCAGCAACTCAGTTCCAGG
GACCCTTCTTCAAAGAGTAG

Translation (1709 aa):
MHQNTESVAVTETLAEVPEHVLRGLPEEVRLLPSAVDKTRIGVWATKPILKGKKFGPFVGDKKKRSQVRN
NVYMWEVYYPNLGWMCIDATDPEKGNWLRYVNWACSGEEQNLFPLEINRAIYYKTLKPIAPGEELLVWYN
GEDNPEIAAAIEEERASARSKRSSPKSRRGKKKSQENKNKGVRTQAAARKASELDSTSANMRGSAEGPKE
EDERPLASAPEQPALLPEVVSQDAVPQVAIPLPACESQPGADGKQEVTDCEVNNMKEEEEEEEEELEEEE
EEEELGEDGEEEADMPNESSVKEPEIRCEEKPEDLLEEPRSVPTETSEGSPGATPPPHAPRAREEANGEG
LETFMFPCQHCERKFATKQGLERHMHIHISTINHAFKCKYCGKPFGTQINRRRHERRHETGLKRRPSMAL
QSSEDPDDGKGENVTSKDESSPPQLGQDCLILNSEKTSQEILNSSFVEENGEVKELHPCKYCKKVFGTHT
NMRRHQRRVHERHLIPKGVRRKGGLLEEPQPPAEQAPPSQNVYVPSTEPEEDGDADDVYIMDISSNISEN
LNYYIDGKIQTNNSTSDCDVIEMESNSAHLYGIDCLLTPVTVEITQNIKSTQGSVTDDLLKESPSSTNCE
SKKRRTASPPVLPKIKAETDSDSTAPSCSLSLPLSISTTEVVSFHKEKGVYLSSKLKQLLQTQDKLTPPA
GISTAEIPKLGPVCVSAPASMLAVTSSRFKRRTSSPPSSPQHSPALRDFGKQSDGKAAWTDTALTSKKPK
LESRSDSPAWSLSGRDERETGSPPCFDEYKISKEWAASSTFSSVCNQQPLDLSSGVKQKSEGTGKTPVPW
ESVLDLSVHKKPCDSEGKEFKENHLAQPAAKKKKPTTCMLQKVLLNEYNGVSLPTESTPEATRSPSPCKS
PDTQPDPELATDSSCSAPTAESPPEVVGPSSPPLQAASLSSGQLPPLLIPTEPSSPPPCPPVLTVATPPP
PLLPTVPLPNPSCDASPQQCPSPFSNATAQSPLPILSPTVSPSPSPIPPVEPLMSAASPGPPTLSSSSSS
SSSSSFSSSSCSSSSPSPPPLSAVSSVVSSGDNLEASLPAITLKQEESESEGLKRKEEAPAAGGQSAVQE
TFSRNFVCNVCASPFLSIKDLTKHLSVHAEEWPFKCEFCVQLFKGKTDLSEHRFLLHGVGNIFVCSVCKK
EFAFLCNLQQHQRDLHPDELCTHHEFESGTLRPQNFTDPSKAHVEHMPSLPEEPAEASREEELNDSSEEL
YTTIKIMASGIKTKEPDVRLGLNQHYPSFKPPPFQYHHRNPMGIGVTATNFTTHNIPQTFTTAIRCTKCG
KSVDNMPELHKHILACASASDKKRYTPKKNPVPLRQTVQPKNGVLVLDNSGKNAFRRMGQPKRLSFNVEL
SKMSPNKLKLNALKKKNQLVQKAILQKNRSAKQKADLRDTSEASSHICPYCDREFTYIGSLNKHAAFSCP
KKPLSPSKRKVSHSSKKGGHTSSASSDRNSSSNPRRRTADTEIKMQSMQAPLGKTRARSTGPAQASLPSS
SFRSRQNVKFAASVKSKKASSSSLRNSSPVRMAKITHVEGKKSKAVAKSHSTQLSSKASRSLHVKVQKSK
AVLQSKTALASKKRTDRFIVKSRERSGGPITRSLQLAAAADLSESRREDSSARHELKDLSYSLRLASRCA
SSTAPYITRQCRKVKAAAATQFQGPFFKE


Links Key
 Links to:   History report
  BLAST report
  Entrez Gene
  Nucleotide report
  Protein report
 Re-query CCDS DB by:   CCDS ID
  Gene ID
  Nucleotide ID
  Protein ID
 Genome Browser Links:   Ensembl Genome Browser
  NCBI Sequence Viewer
  UCSC Genome Browser
  VEGA Genome Browser

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