RetrogeneDB ID: retro_ggor_857

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 12:16603412..16605453(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: SUPT16H
• Ensembl ID: ENSGGOG00000002243
• Aliases: None
• Description: None

Sequence

>retro_ggor_857
ATGGCTGTGACTCTGGACAAAGACGCTTATTATCGGTGAGTGAAGGGACTGTACAGCAATTGGCAGAAAGGAGAAGATGA
GTATGCCAACGTTGAGCCATTGTTGTATCAGTGGGTGTTGATGAAGAAATTGTTTATTCCAAATCAACTGCCTTACAGAC
ATGGCTCTTTGGTTACGAACTAACTGATACTACCATGGTCTTTTGTGAGGACAAAATCATCTTTATGGCCAGCAAGAAAA
AAGTGGAGTTTTTGAAACAGATTGCCAACACTAAGGGCAATGAGAATGCTAATGGAGCCCCTGCCATCAGACTGCTGATA
TGAGAAAAGAACGAAAGTAGTAAGAGTAGCTTTGACAAAATGATTGAAGCCATTAAAGAAAGCAAGAATGGCAAGAAGAT
TGGAGTGTTCAGCAAAGACAAATTCCCTGGAGAGTTCATGAAGAGCTGGAATGACTGCCTCAACAAAGAAGGCTTTGACA
AAATAGACATCAGTGCAGTTGTGGCATATACCGTCGCTGTAAAGGAGGATGGGGAGCTCAAATTAATGAAGAAAGCAGCC
GGCATCACTTCTGAAGTCTTCAACAAATTCTTCAAGGAAAGAGTCATGGAAATAGTTGATGCAGATGAGAAAGTTTGACA
CAGCAAACTGGCTGAGTCTGTGGAAAAGGCCGTTGAAGAGAAAAAATACCTTGCTGGGGCAGACCCTTCTACTGTGGAAA
TGTGTTACCCTCCTATCATTCAGAGTGGTGGCAACTATAATCTCAAGTTCAGTGTGGTGAGTGACAAGAATCACATGCAT
TTTGGGGCTATCACTTGTGCCGTGCGTATTCGCTTCAAGTCTTACTGCTCCAACCTGTTCCCACTTTGATGGCTGATCCT
TCTCAGGAAGTTCAAGAAAATTACAACTTTTTACTCCAGCTTCAAGAAGAGCTGCTGAAGGAATTAAGACATGGTGTGAA
GATATGTGATGTATATAATGCTGTCATGGACGTGGCTAAAAAGCAGAAGCCAGAACTCCTGAACAAAATTACCAGAAACC
TAGGATTTGGGGTGGGAATTGAATTCCATGAAAGCTTCCTAGTAATCAATAGTAAAAATCAATACAAACTGAAGACAGGA
ATGGTTTTCAGCATCAATTTGGGATTCTCAGACCTAAATAACAAGGAGGGGAAAAAGCCAGAAGAGAAAACCTATGCCCT
GTTCCTTAGTGACACAGTGCTTATGGATGAGGATGGCCCAGCTACTGTTCTCACTTCTGTGAAGAAGAAAGTGAAGAATG
TGGGGATTTTCCTAAGGAACAAAGATGAGGAAGAGGAGGAGGAGGAGAAAGATGAGGCAGAGGACCTTTTGGGAAGAGGT
TCTCGGGCAGCATTACTTACAGAAAGAACAAGAATGAAATGACTGCAGAAGAGAAGTGAAGAGCACATCAAAAAGAACTA
GCGGCTCAACTCAATGAAGAAGCAAAGAGGCAATTGACTGAACAAAAGGGAGAACAGGAGATTCAGAAAGCTCACAAATC
TAATGTGTCCTATAAACACCCATCTCTGATGCCTAAGGAACCACATATTGGGGAAATGAAGATCTACATCTATAAGAAAT
ATGAGACTGTAATAATGCGTGTGTTTGGCATTGCAACACCTTTTCACATTGCCACAATCAAGAATATAAGTATGTCCGTG
GAAGGAGATTATACTTACTTGCAAACCAACTTTTATTGCCCAGGCAGTGCTCTGGGAAGGAATGAAGGCAACATCTTTCC
TAACCCCGAAGCGACTTTTGTCAAAGAAATTACATACCAAGCGTCATACAATGACCGGGGAACAGACAGTACCAGCCTTG
AACCTTCAGAATGCTTTCTGAATTATTAAAGAAGTACAGAAATGTTATAAAACTCGAGAAGCTGAAGAGAAAGAGAAGGA
GGGCATTGTAAAACAAGACTCACTGGTGATCAATCTAAACTGGAGTAATTCCAAACTGAAAGATCTATACNNNNNNNNNN
ATAATGAGGCACAAACTGAAAACAGCCTTTTAGAATTTCAT

Alignment

ORF - retro_ggor_857 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.66 %
• Parental protein coverage: 65.05 %
• Number of stop codons detected: 6
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  MAVTLDKDAYYRRVKRLYSNWRKGEDEYANVD-AIVVSVGVDEEIVYAKSTALQTWLFGYELTDTIMVFC
          MAVTLDKDAYYR.VK.LYSNW.KGEDEYANV..AIVVSVGVDEEIVY.KSTALQTWLFGYELTDT.MVFC
Retrocopy MAVTLDKDAYYR*VKGLYSNWQKGEDEYANVE<AIVVSVGVDEEIVYSKSTALQTWLFGYELTDTTMVFC

Parental  DDKIIFMASKKKVEFLKQIANTKGNENANGAPAITLLIREKNESNKSSFDKMIEAIKESKNGKKIGVFSK
          .DKIIFMASKKKVEFLKQIANTKGNENANGAPAI.LLI.EKNES.KSSFDKMIEAIKESKNGKKIGVFSK
Retrocopy EDKIIFMASKKKVEFLKQIANTKGNENANGAPAIRLLI*EKNESSKSSFDKMIEAIKESKNGKKIGVFSK

Parental  DKFPGEFMKSWNDCLNKEGFDKIDISAVVAYTIAVKEDGELNLMKKAASITSEVFNKFFKERVMEIVDAD
          DKFPGEFMKSWNDCLNKEGFDKIDISAVVAYT.AVKEDGEL.LMKKAA.ITSEVFNKFFKERVMEIVDAD
Retrocopy DKFPGEFMKSWNDCLNKEGFDKIDISAVVAYTVAVKEDGELKLMKKAAGITSEVFNKFFKERVMEIVDAD

Parental  EKVRHSKLAESVEKAIEEKKYLAGADPSTVEMCYPPIIQSGGNYNLKFSVVSDKNHMHFGAITCAMGIRF
          EKV.HSKLAESVEKA.EEKKYLAGADPSTVEMCYPPIIQSGGNYNLKFSVVSDKNHMHFGAITCA..IRF
Retrocopy EKV*HSKLAESVEKAVEEKKYLAGADPSTVEMCYPPIIQSGGNYNLKFSVVSDKNHMHFGAITCAVRIRF

Parental  KSYCSNL-VRTLMVDPSQEVQENYNFLLQLQEELLKELRHGVKICDVYNAVMDVVKKQKPELLNKITKNL
          KSYCSNL.V.TLM.DPSQEVQENYNFLLQLQEELLKELRHGVKICDVYNAVMDV.KKQKPELLNKIT.NL
Retrocopy KSYCSNL<VPTLMADPSQEVQENYNFLLQLQEELLKELRHGVKICDVYNAVMDVAKKQKPELLNKITRNL

Parental  GFGMGIEFREGSLVINSKNQYKLKKGMVFSINLGFSDLTNKEGKKPEEKTYALFIGDTVLVDEDGPATVL
          GFG.GIEF.E..LVINSKNQYKLK.GMVFSINLGFSDL.NKEGKKPEEKTYALF..DTVL.DEDGPATVL
Retrocopy GFGVGIEFHESFLVINSKNQYKLKTGMVFSINLGFSDLNNKEGKKPEEKTYALFLSDTVLMDEDGPATVL

Parental  TSVKKKVKNVGIFLKNEDEEEEEEEKDEAEDLLGRGSRAALLTERTR-NEMTAEEKRRAHQKELAAQLNE
          TSVKKKVKNVGIFL.N.DEEEEEEEKDEAEDLLGRGSRAALLTERTR.NEMTAEEK.RAHQKELAAQLNE
Retrocopy TSVKKKVKNVGIFLRNKDEEEEEEEKDEAEDLLGRGSRAALLTERTR<NEMTAEEK*RAHQKELAAQLNE

Parental  EAKRRLTEQKGEQQIQKARKSNVSYKNPSLMPKEPHIREMKIYIDKKYETVIMPVFGIATPFHIATIKNI
          EAKR.LTEQKGEQ.IQKA.KSNVSYK.PSLMPKEPHI.EMKIYI.KKYETVIM.VFGIATPFHIATIKNI
Retrocopy EAKRQLTEQKGEQEIQKAHKSNVSYKHPSLMPKEPHIGEMKIYIYKKYETVIMRVFGIATPFHIATIKNI

Parental  SMSVEGDYTYLRINFYCPGSALGRNEGNIFPN-PEATFVKEITYRASNIKAPG-EQTVPALNLQNAFRII
          SMSVEGDYTYL..NFYCPGSALGRNEGNIFPN.P...F.....Y..S.I..PG.EQTVPALNLQNAF.II
Retrocopy SMSVEGDYTYLQTNFYCPGSALGRNEGNIFPN<PRSDFCQR-NYIPSVIQ*PG<EQTVPALNLQNAF*II

Parental  KEVQKRYKTREAEEKEKEGIVKQDSLVINLNRSNPKLKDLYIRPNIAQKRMQGSLEAH
          KEVQK.YKTREAEEKEKEGIVKQDSLVINLN.SN.KLKDLY.............LE.H
Retrocopy KEVQKCYKTREAEEKEKEGIVKQDSLVINLNWSNSKLKDLYXXXXNEAQTENSLLEFH

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	0.10 RPM	61.91 RPM
SRP007412_cerebellum	0.04 RPM	55.12 RPM
SRP007412_heart	0.03 RPM	9.10 RPM
SRP007412_kidney	0.04 RPM	35.41 RPM
SRP007412_liver	0.03 RPM	18.33 RPM
SRP007412_testis	0.00 RPM	124.63 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_857 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_857 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1089
Pan troglodytes	retro_ptro_741

---

Parental genes homology:

Parental genes homology involve 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000092201	1 retrocopy	retro_hsap_1089,
Gorilla gorilla	ENSGGOG00000002243	1 retrocopy	retro_ggor_857 ,
Nomascus leucogenys	ENSNLEG00000014392	1 retrocopy	retro_nleu_1624,
Pan troglodytes	ENSPTRG00000006122	1 retrocopy	retro_ptro_741,