RetrogeneDB ID: retro_ggor_2294

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 5:124895468..124896371(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000022752
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: SLC25A15
• Ensembl ID: ENSGGOG00000025261
• Aliases: None
• Description: None

Sequence

>retro_ggor_2294
ATGAAGTCTGGTCCTGGCATCCAAGCCGCCATCGACCTCACAGCGGGGGCCGCAGGGGGGACAGCGTGTGTAATGACTGG
GCAGCCCTTCGACACAATGAAAGTGAAGATGCAGACGTTCCCTGACCTGTACAAGGGCCTCACCGACTGCTTCCTGAAGA
CATACGCCCAAGTGGGTCTCCGGGGCTTCTACAAGGGCACCGGCCCGGCACTTATGGCCTACGTCGCCGAAAACTCGGTC
CTCTTCATGTGCTACGGGTTCTGCCAGCAGTTTGTCAGGGAAGTGGCTGGAATGGACAAGCAGGCAAAGCTGAGTGATCT
CCAGACTGCAGCCGCGGGGTCCTTCGCCTCTGCATTTGCTGCACTGGCTCTCTGCCCCACTGAGCTTGTGAAGTGCCGGC
TACAGACCATGTATGAAATGGAGATGTCAGGGAAGATAGCAAAAAGCCATAATACAATTTGGTCTGTCGTGAAGGGTACC
CTTAAAAAGGAGGGCCCCTTGGGCTTCTACCATGGACTCTCGAGTACTCTACTTCAAGAAGTACCGGGTTATTTCTTTTT
CTTTGGTGGCTATGAACTGAGCCGATCGTTTTTTGCGTCAGGGAGATCAAAAGATGAACTAGGCCCTGTCCATTTGATGT
TAAGTGGTGGAGTTGCTGGAATTTGCCTGTGGCTTGTCGTGTTCCCAGTGGATTGTATTAAATCCAGAATTCAAGTTCTT
TCCATGTATGGGAAACAGGCAGGATTTATTGGTACCCTCTTAAGTGTTGTGAGAAATGAAGGAATAGTAGCCTTATATTC
TGGACTGAAAGCTACTATGATTCGAGCAATCCCTGCCAATGGGGCACTGTTTGTGGCCTACGAATACAGCAGGAAGATGA
TGATGAACCAGTTGGAAGCATAC

Alignment

ORF - retro_ggor_2294 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.04 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MKSNPAIQAAIDLTAGAAGGTACVLTGQPFDTMKVKMQTFPDLYRGLTDCCLKTYSQVGFRGFYKGTSPA
          MKS.P.IQAAIDLTAGAAGGTACV.TGQPFDTMKVKMQTFPDLY.GLTDC.LKTY.QVG.RGFYKGT.PA
Retrocopy MKSGPGIQAAIDLTAGAAGGTACVMTGQPFDTMKVKMQTFPDLYKGLTDCFLKTYAQVGLRGFYKGTGPA

Parental  LIANIAENSVLFMCYGFCQQVVRKVAGLDKQAKLSDLQNAAAGSFASAFAALVLCPTELVKCRLQTMYEM
          L.A..AENSVLFMCYGFCQQ.VR.VAG.DKQAKLSDLQ.AAAGSFASAFAAL.LCPTELVKCRLQTMYEM
Retrocopy LMAYVAENSVLFMCYGFCQQFVREVAGMDKQAKLSDLQTAAAGSFASAFAALALCPTELVKCRLQTMYEM

Parental  ETSGKIAKSQNTVWSVIKSILRKDGPLGFYHGLSSTLLREVPGYFFFFGGYELSRSFFASGRSKDELGPV
          E.SGKIAKS.NT.WSV.K..L.K.GPLGFYHGLSSTLL.EVPGYFFFFGGYELSRSFFASGRSKDELGPV
Retrocopy EMSGKIAKSHNTIWSVVKGTLKKEGPLGFYHGLSSTLLQEVPGYFFFFGGYELSRSFFASGRSKDELGPV

Parental  PLMLSGGVGGICLWLAVYPVDCIKSRIQVLSMSGKQAGFIRTFISVVKNEGITALYSGLKPTMIRAFPAN
          .LMLSGGV.GICLWL.V.PVDCIKSRIQVLSM.GKQAGFI.T..SVV.NEGI.ALYSGLK.TMIRA.PAN
Retrocopy HLMLSGGVAGICLWLVVFPVDCIKSRIQVLSMYGKQAGFIGTLLSVVRNEGIVALYSGLKATMIRAIPAN

Parental  GALFLAYEYSRKLMMNQLEAY
          GALF.AYEYSRK.MMNQLEAY
Retrocopy GALFVAYEYSRKMMMNQLEAY

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP007412_brain_prefrontal_cortex	0.00 RPM	2.06 RPM
SRP007412_cerebellum	0.00 RPM	1.10 RPM
SRP007412_heart	0.06 RPM	0.50 RPM
SRP007412_kidney	0.00 RPM	2.70 RPM
SRP007412_liver	0.03 RPM	10.18 RPM
SRP007412_testis	6.84 RPM	10.57 RPM

ChIP-Seq

Gorilla gorilla was not studied using ChIP-Seq data.

EST

Gorilla gorilla was not studied using EST data.

TSS

Gorilla gorilla was not studied using FANTOM5 data.

Lab

retro_ggor_2294 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2294 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_44
Pan troglodytes	retro_ptro_2303
Pongo abelii	retro_pabe_82

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Parental genes homology:

Parental genes homology involve 14 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000017797	1 retrocopy	retro_cjac_1776,
Cavia porcellus	ENSCPOG00000005570	2 retrocopies	retro_cpor_105, retro_cpor_107,
Equus caballus	ENSECAG00000007666	1 retrocopy	retro_ecab_72,
Homo sapiens	ENSG00000102743	1 retrocopy	retro_hsap_44,
Gorilla gorilla	ENSGGOG00000025261	1 retrocopy	retro_ggor_2294 ,
Microcebus murinus	ENSMICG00000007218	1 retrocopy	retro_mmur_18,
Macaca mulatta	ENSMMUG00000022585	1 retrocopy	retro_mmul_199,
Nomascus leucogenys	ENSNLEG00000001185	1 retrocopy	retro_nleu_1704,
Otolemur garnettii	ENSOGAG00000009380	1 retrocopy	retro_ogar_490,
Pongo abelii	ENSPPYG00000005307	1 retrocopy	retro_pabe_82,
Pan troglodytes	ENSPTRG00000005809	1 retrocopy	retro_ptro_2303,
Pteropus vampyrus	ENSPVAG00000010393	1 retrocopy	retro_pvam_15,
Ictidomys tridecemlineatus	ENSSTOG00000007840	1 retrocopy	retro_itri_726,
Tupaia belangeri	ENSTBEG00000017239	1 retrocopy	retro_tbel_4583,