NCBI CCDS banner
PubMed Entrez Gene BLAST OMIM
  

CCDS
Home
FTP
Process
Releases & Statistics

Collaborators
EBI
HGNC
MGI
NCBI

Contact Us
email CCDS

Genome Displays

Ensembl
NCBI
UCSC
VEGA

Related Resources
Gene
HomoloGene
MANE
RefSeq


Report for CCDS2156.2 (current version)

CCDS Status Species Chrom. Gene CCDS Release NCBI Annotation Release Ensembl Annotation Release Links
2156.2 Public Homo sapiens 2 SMPD4 24 110 108 CCDS HistoryNCBI Gene:55627Re-query CCDS DB by CCDS ID:2156.2Re-query CCDS DB by GeneID:55627See the combined annotation on chromosome 2 in Sequence Viewer

Public Note for CCDS 2156.2
This CCDS representation uses the 5'-most in-frame start codon. While this start codon is well-conserved, it should be noted that other than human and chimp, all other species have indels that follow this start codon. Other primates and rodents have frameshifting indels, and thus cannot use this start codon. However, some mammalian species, including cow, pig and dog, contain additional compensating indels that bring them back in frame; these species could therefore use the start codon represented in this CCDS. An alternative downstream start codon, which is more widely conserved and has a stronger Kozak signal, also exists. It is possible that leaky scanning by ribosomes would allow the downstream start codon to be used, at least some of the time. The use of the downstream start codon would result in a protein that is 39 aa shorter at the N-terminus. There is no experimental evidence showing which start codon is preferentially used in vivo.

Public since: CCDS release 1, NCBI annotation release 35.1, Ensembl annotation release 23

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

Sequence IDs included in CCDS 2156.2

Original Current Source Nucleotide ID Protein ID MANE Status in CCDS Seq. Status Links
Original member Current member EBI ENST00000351288.10 ENSP00000259217.8 Accepted alive Link to Ensembl Transcript Viewer:ENST00000351288.10Link to Ensembl Protein Viewer:ENSP00000259217.8Re-query CCDS DB by Nucleotide ID:ENST00000351288Re-query CCDS DB by Protein ID:ENSP00000259217
Original member Current member NCBI NM_017751.4 NP_060221.2 Accepted alive Link to Nucleotide Sequence:NM_017751.4Link to Protein Sequence:NP_060221.2Re-query CCDS DB by Nucleotide ID:NM_017751Re-query CCDS DB by Protein ID:NP_060221Link to BLAST:NP_060221.2

RefSeq Length Related UniProtKB/SwissProt Length Identity Gaps Mismatches
NP_060221.2 837 Q9NXE4-2 837 100% 0 0

Chromosomal Locations for CCDS 2156.2

Assembly GRCh38.p14 (GCF_000001405.40)

On '-' strand of Chromosome 2 (NC_000002.12)
Genome Browser links: Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 2Link to Ensembl Genome Browser on chromosome 2See the combined annotation on chromosome 2 in Sequence Viewer

Chromosome Start Stop Links
2 130152555 130152884 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 2Link to Ensembl Genome Browser on chromosome 2
2 130153043 130153171 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 2Link to Ensembl Genome Browser on chromosome 2
2 130153319 130153450 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 2Link to Ensembl Genome Browser on chromosome 2
2 130153702 130153935 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 2Link to Ensembl Genome Browser on chromosome 2
2 130154277 130154482 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 2Link to Ensembl Genome Browser on chromosome 2
2 130155096 130155259 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 2Link to Ensembl Genome Browser on chromosome 2
2 130156035 130156135 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 2Link to Ensembl Genome Browser on chromosome 2
2 130156585 130156675 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 2Link to Ensembl Genome Browser on chromosome 2
2 130157251 130157396 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 2Link to Ensembl Genome Browser on chromosome 2
2 130164374 130164445 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 2Link to Ensembl Genome Browser on chromosome 2
2 130167458 130167590 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 2Link to Ensembl Genome Browser on chromosome 2
2 130172349 130172500 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 2Link to Ensembl Genome Browser on chromosome 2
2 130172625 130172677 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 2Link to Ensembl Genome Browser on chromosome 2
2 130172787 130172895 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 2Link to Ensembl Genome Browser on chromosome 2
2 130173279 130173354 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 2Link to Ensembl Genome Browser on chromosome 2
2 130173514 130173656 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 2Link to Ensembl Genome Browser on chromosome 2
2 130174914 130175000 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 2Link to Ensembl Genome Browser on chromosome 2
2 130176554 130176637 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 2Link to Ensembl Genome Browser on chromosome 2
2 130181530 130181601 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 2Link to Ensembl Genome Browser on chromosome 2

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 (2514 nt):
ATGACGACTTTCGGCGCCGTGGCGGAATGGCGGCTTCCATCTCTGAGGCGAGCGACGCTATGGATCCCAC
AGTGGTTTGCTAAGAAGGCCATTTTCAACTCTCCACTGGAGGCTGCTATGGCGTTCCCTCACCTGCAGCA
GCCCAGCTTTCTACTGGCTAGCCTGAAAGCTGACTCTATAAATAAGCCCTTTGCACAGCAGTGCCAAGAC
TTGGTTAAAGTCATTGAGGACTTTCCAGCAAAGGAGCTGCACACCATCTTCCCATGGCTGGTAGAAAGCA
TTTTTGGCAGCCTAGATGGTGTCCTCGTTGGCTGGAACCTCCGCTGCTTACAGGGGCGCGTGAATCCTGT
GGAGTACAGCATCGTGATGGAATTTCTCGACCCTGGTGGCCCAATGATGAAGTTGGTTTATAAGCTTCAA
GCTGAAGACTATAAGTTCGACTTTCCTGTCTCCTACTTGCCTGGTCCTGTGAAGGCGTCCATCCAGGAGT
GCATCCTCCCTGACAGTCCTCTGTACCACAACAAGGTCCAGTTCACCCCTACTGGGGGCCTTGGTCTGAA
CTTGGCCCTGAATCCGTTCGAGTATTACATATTCTTCTTTGCCTTGAGCCTCATCACTCAGAAGCCACTT
CCTGTGTCCCTCCACGTCCGTACTTCAGACTGTGCCTATTTCATCCTGGTGGACAGGTACCTGTCATGGT
TCCTGCCCACCGAAGGCAGTGTGCCCCCACCACTCTCCTCCAGCCCAGGGGGGACCAGCCCCTCACCACC
TCCCAGGACACCAGCCATACCCTTTGCTTCCTATGGCCTCCACCACACTAGCCTCCTAAAGCGACACATC
TCTCATCAGACGTCTGTGAATGCAGACCCCGCCTCCCACGAGATCTGGAGGTCAGAAACTCTGCTCCAGG
TTTTTGTTGAAATGTGGCTTCATCACTATTCCTTGGAGATGTATCAAAAAATGCAGTCCCCTCATGCCAA
GGAGTCGTTCACGCCTACTGAGGAGCATGTGTTGGTGGTGCGCCTGCTGCTGAAGCACCTGCACGCCTTT
GCCAACAGCCTGAAGCCAGAGCAGGCCTCACCCTCCGCCCACTCCCACGCCACCAGCCCCCTGGAGGAGT
TCAAACGGGCTGCTGTCCCGAGGTTCGTCCAGCAGAAACTCTACCTCTTCTTGCAGCATTGCTTTGGCCA
CTGGCCCCTGGACGCATCGTTCAGAGCTGTCCTGGAGATGTGGCTGAGCTACCTGCAGCCGTGGCGGTAC
GCGCCTGACAAGCAGGCTCCGGGCAGCGACTCCCAGCCCCGGTGTGTGTCGGAGAAATGGGCACCCTTTG
TCCAGGAGAACCTGCTGATGTACACCAAGTTGTTTGTGGGCTTTCTGAACCGCGCGCTCCGCACAGACCT
GGTCAGCCCCAAGCACGCGCTCATGGTGTTCCGAGTGGCCAAAGTCTTTGCCCAGCCCAACCTGGCTGAG
ATGATTCAGAAAGGTGAGCAGCTATTCCTGGAGCCAGAGCTGGTCATCCCCCACCGCCAGCACCGACTCT
TCACGGCCCCCACATTCACTGGGAGCTTCCTGTCACCCTGGCCACCAGCGGTCACTGATGCCTCCTTCAA
GGTGAAGAGCCACGTCTACAGCCTGGAGGGCCAGGACTGCAAGTACACCCCGATGTTTGGGCCCGAGGCC
CGCACCCTGGTCCTGCGCCTCGCTCAGCTCATCACACAGGCCAAACACACAGCCAAGTCCATCTCCGACC
AGTGTGCGGAGAGCCCGGCTGGCCACTCCTTCCTCTCATGGCTGGGCTTTAGCTCCATGGACACCAATGG
CTCCTACACAGCCAACGACCTGGACGAGATGGGGCAAGACAGTGTCCGGAAGACAGATGAATACCTGGAG
AAGGCCCTGGAGTACCTGCGCCAGATATTCCGGCTCAGCGAAGCGCAGCTCAGGCAGTTCACACTCGCCT
TGGGCACCACCCAGGATGAGAATGGAAAAAAGCAACTCCCCGACTGCATCGTGGGTGAGGACGGACTCAT
CCTTACGCCCCTGGGGCGGTACCAGATCATCAATGGGCTGCGAAGGTTTGAAATTGAGTACCAGGGGGAC
CCGGAGCTGCAGCCCATCCGGAGCTATGAGATCGCCAGCTTGGTCCGCACACTCTTTAGGCTGTCGTCTG
CCATCAACCACAGATTTGCAGGACAGATGGCGGCTCTGTGTTCCCGGGATGACTTCCTCGGCAGCTTCTG
TCGCTACCACCTCACAGAACCTGGGCTGGCCAGCAGGCACCTGCTGAGCCCTGTGGGGCGGAGGCAGGTG
GCCGGCCACACCCGCGGCCCCAGGCTCAGCCTGCGCTTCCTGGGCAGTTACCGGACGCTGGTCTCGCTGC
TGCTGGCCTTCTTCGTGGCCTCTCTGTTCTGCGTCGGGCCCCTCCCATGCACGCTGCTGCTCACCCTGGG
CTATGTCCTCTACGCCTCTGCCATGACACTGCTGACCGAGCGGGGGAAGCTGCACCAGCCCTGA

Translation (837 aa):
MTTFGAVAEWRLPSLRRATLWIPQWFAKKAIFNSPLEAAMAFPHLQQPSFLLASLKADSINKPFAQQCQD
LVKVIEDFPAKELHTIFPWLVESIFGSLDGVLVGWNLRCLQGRVNPVEYSIVMEFLDPGGPMMKLVYKLQ
AEDYKFDFPVSYLPGPVKASIQECILPDSPLYHNKVQFTPTGGLGLNLALNPFEYYIFFFALSLITQKPL
PVSLHVRTSDCAYFILVDRYLSWFLPTEGSVPPPLSSSPGGTSPSPPPRTPAIPFASYGLHHTSLLKRHI
SHQTSVNADPASHEIWRSETLLQVFVEMWLHHYSLEMYQKMQSPHAKESFTPTEEHVLVVRLLLKHLHAF
ANSLKPEQASPSAHSHATSPLEEFKRAAVPRFVQQKLYLFLQHCFGHWPLDASFRAVLEMWLSYLQPWRY
APDKQAPGSDSQPRCVSEKWAPFVQENLLMYTKLFVGFLNRALRTDLVSPKHALMVFRVAKVFAQPNLAE
MIQKGEQLFLEPELVIPHRQHRLFTAPTFTGSFLSPWPPAVTDASFKVKSHVYSLEGQDCKYTPMFGPEA
RTLVLRLAQLITQAKHTAKSISDQCAESPAGHSFLSWLGFSSMDTNGSYTANDLDEMGQDSVRKTDEYLE
KALEYLRQIFRLSEAQLRQFTLALGTTQDENGKKQLPDCIVGEDGLILTPLGRYQIINGLRRFEIEYQGD
PELQPIRSYEIASLVRTLFRLSSAINHRFAGQMAALCSRDDFLGSFCRYHLTEPGLASRHLLSPVGRRQV
AGHTRGPRLSLRFLGSYRTLVSLLLAFFVASLFCVGPLPCTLLLTLGYVLYASAMTLLTERGKLHQP


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

Disclaimer | Write to the Help Desk
NCBI | NLM | NIH