RetrogeneDB ID: retro_ggor_2279

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 5:93945622..93948073(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BCLAF1
• Ensembl ID: ENSGGOG00000001824
• Aliases: None
• Description: None

Sequence

>retro_ggor_2279
GGTCGCTCCAATTCTAGATCACATTCTTCAAGGTCAAAGTCTAGATGACAGTCTAGTTCTCGATCAAGATCAAGATCTCA
TTCTAGAAAGAAGCGATACAGTTCTAGGTCTCGTTCCAGAACATATTCAAGGTGTTGGAGTAGAGATCGTATGTATTCTA
GAGATGATCGTCGTGAGCACAGAAATAATAGAGGAATGAAACGACCTTATGGGTACAGAGGAAGGGGTAGAGGGTATTAT
CAAGGAGGAGGAGGTAGATATCATCGAGGTGGTTATAGACCTGTCTGGAATAGAAGGCACTCTAGGAGTCCTAGACGAAG
TCGTTCACATTCCAGGAGTCCAAAAAGAAGATCCGTTTCTTCTCAAAGATCCAGAAGCAGATCTCGCTGGTCATACAGCT
CTTCTAGGTCTCCAAGATCATTCTCTTCTCATTCTTCATCTCCATATAGCAAATCTCCTGTTTCTAAAAGATGAGGGTCT
CAGGAAAAACAAACCAAAAAAGCTGAAGGGGAACCCCAAGAAGAGAGTCCGTTGAAAACTAAATCACAGGAGGAACTGAA
AGATACATTTGAACATGGTCCATCTGAATCTATCGATGAATTTAATAAGTCATCAGTCACATCCGGTGATATTTGGCCTG
GCCTTACAGCTTATAATAATAGTCCCAGATCACCCCATAGTCCTTCACCTATTGCTACACCACCTAGTCAGAGTTCATCT
TGCTCTGATGCTCCTATGCTCAGTACAGTTCACTCTGCAAAAAAATACTCCTTCTCAGCATTCAAAATCCATTCAGCATA
GTCCTGAAAGGTCTGGGTCTGGTTCTGTTGGAAATGGATCTAGTCCATACAGTCCTTCTCAGAATAGTCCAATTCATCAC
ATCCCTTCACGAAGAAGTCCTGCAAAGACAATCGCACCACAGAATGCTCCAAGAGATGAGTCTAGGGGCCGTTCCTCATT
TTATCCTGATAATGGAGATCAGGAAACTGCAAAGACTGGGAAGTTCTTAAAAAGGTTCACAGATGAAGAGTCTAGAGTAT
TCCTGCTTGATAGGGGTAATGCCAGGGATAAAGAGGCTTCAAAAGAGAAAGGATCAGAGAAAGGGAGGGCAGAGGGAGAA
TGGGAAGATCAGGAAGCTCTAGATTACTTCAGTGATAAAGAGTCTGGAAAACAAAGTTTAATGATTCAGAAGGGGATGGC
ACAGAGGAGACAGAGGATTATAGACAGTTCAGGAAGTCAGTCCTCACAGATCAAGGTAAAAGTTTTGCTACTGCATCTCA
ATGGAATACTGAGGAGGAAGGACTCAAGTACAAGTCCAAAGTTTCACTGAAAGGCAATAGAGAAAGTGGTGGATTTAGAG
AAGAAAAAAATTATAAACTTAAAGAAGCTGGATATGTAGTGGAAAGGCCTACCACTACAAAAGATAAGCACAAAGAAGAA
GACAAAAATTCTGAAAGAATAACAGTAAAGAAAGAAACTCAGTCACCTGAGCAGGTAAAGTCTGAAAAGCTCAAAGACCT
CTTTGATTACAGTCCCCCTCTACACAAGAATCTGGATGAGTGAGAAAAGTCTACCTTCAGAGAGGAAAGCCCACTTAGGA
TCAAAATGATAGCAAGTGATTCTCATCGTCCTGAAGTCAAACTCAAAATGGCACCTGTTCCTCTTGATGATTCTAACAGA
CCTGCTTCCTTGACTAAAGACAGGTGGCTTGCTAGTACACTTGTCCATTCTGTCAAGAAGGAGCAAGAATTCTGATCCAT
CTTTGACCACATTAAGTTGCCACAGGCCAGCAAAAGCACTTCAGAGTCATTTATTTAACACATTGTGTTCTTGGTTCATC
ATGTTAAAGAGCAATACTTCAAGTCAGCTGCAATGACCCTAAACAAGCGGTTTACTTCCCATCAGAAAGCCACTGAAGAA
CATAGTACTTGGCAAAAGAGCCCTGAAATACACAGGAGAATTGACATCTCACCAAGTACCCTGAGGAAGCATACCCATTT
AGCAGGGGACGAGAGAGTTTTTAAAGAAGAAAATCAAAAGGGAGATAAAAAATTAAGGTGTGACTCTGCTGACCTTCAGC
ATGACATTGATCGCTGTAGAAAAGAAAGAAGTAAAGAACGGGGAAATTCCAAGGGCCCCAGGGAATCCAGTGGATCAAGA
AAGCAGGAAAAAACTCCAAAAGATTACAAGGAATACAAATCTTACAAAGATGACAGTAAACATAAAAATAGAGAGCAAGA
TCATTCTCGATCTTCATCCTCTTCACCATCACCTTCTTCTCCCAGTTCTAGAGAAGAAAAGGAGAGTAAGAAGGAAAGAG
AAGAAGAATTTAAAACTCACCATGAAATGAAAGAATACTCAGGCTTTGCAGGAGTTAGCCAACCATGAGGAACCTTTTTT
CGAATTAGAGGCAGAGGAAGAGACAGAGGAGTTTTTGCTGGGACAAATACT

Alignment

ORF - retro_ggor_2279 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.94 %
• Parental protein coverage: 88.7 %
• Number of stop codons detected: 6
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  GRSNSRSHSSRSKSRSQSSSRSRSRSHSRKKRYSSRSRSRTYSRSRSRDRMYSRDYRRDYRNNRGMRRPY
          GRSNSRSHSSRSKSR.QSSSRSRSRSHSRKKRYSSRSRSRTYSR..SRDRMYSRD.RR..RNNRGM.RPY
Retrocopy GRSNSRSHSSRSKSR*QSSSRSRSRSHSRKKRYSSRSRSRTYSRCWSRDRMYSRDDRREHRNNRGMKRPY

Parental  GYRGRGRGYYQGGGGRYHRGGYRPVWNRRHSRSPRRGRSRSRSPKRRSVSSQRSRSRSRRSYRSSRSPRS
          GYRGRGRGYYQGGGGRYHRGGYRPVWNRRHSRSPRR.RS.SRSPKRRSVSSQRSRSRSR.SY.SSRSPRS
Retrocopy GYRGRGRGYYQGGGGRYHRGGYRPVWNRRHSRSPRRSRSHSRSPKRRSVSSQRSRSRSRWSYSSSRSPRS

Parental  SSSRSSSPYSKSPVSKRRGSQEKQTKKAEGEPQEESPLKSKSQEEPKDTFEHDPSESIDEFNKSSATSGD
          .SS.SSSPYSKSPVSKR.GSQEKQTKKAEGEPQEESPLK.KSQEE.KDTFEH.PSESIDEFNKSS.TSGD
Retrocopy FSSHSSSPYSKSPVSKR*GSQEKQTKKAEGEPQEESPLKTKSQEELKDTFEHGPSESIDEFNKSSVTSGD

Parental  IWPGLSAYDNSPRSPHSPSPIATPPSQSSSCSDAPMLSTVHSAK-NTPSQHSHSIQHSPERSGSGSVGNG
          IWPGL.AY.NSPRSPHSPSPIATPPSQSSSCSDAPMLSTVHSAK.NTPSQHS.SIQHSPERSGSGSVGNG
Retrocopy IWPGLTAYNNSPRSPHSPSPIATPPSQSSSCSDAPMLSTVHSAK>NTPSQHSKSIQHSPERSGSGSVGNG

Parental  SSRYSPSQNSPIHHIPSRRSPAKTIAPQNAPRDESRGRSSFYPDGGDQETAKTGKFLKRFTDEESRVFLL
          SS.YSPSQNSPIHHIPSRRSPAKTIAPQNAPRDESRGRSSFYPD.GDQETAKTGKFLKRFTDEESRVFLL
Retrocopy SSPYSPSQNSPIHHIPSRRSPAKTIAPQNAPRDESRGRSSFYPDNGDQETAKTGKFLKRFTDEESRVFLL

Parental  DRGNTRDKEASKEKGSEKGRAEGEWEDQEALDYFSDKESGKQ-KFNDSEGDDTEETEDYRQFRKSVLADQ
          DRGN.RDKEASKEKGSEKGRAEGEWEDQEALDYFSDKESGKQ.KFNDSEGD.TEETEDYRQFRKSVL.DQ
Retrocopy DRGNARDKEASKEKGSEKGRAEGEWEDQEALDYFSDKESGKQ<KFNDSEGDGTEETEDYRQFRKSVLTDQ

Parental  GKSFATASHRNTEEEGLKYKSKVSLKGNRESDGFREEKNYKLKETGYVVERPSTTKDKHKEEDKNSERIT
          GKSFATAS..NTEEEGLKYKSKVSLKGNRES.GFREEKNYKLKE.GYVVERP.TTKDKHKEEDKNSERIT
Retrocopy GKSFATASQWNTEEEGLKYKSKVSLKGNRESGGFREEKNYKLKEAGYVVERPTTTKDKHKEEDKNSERIT

Parental  VKKETQSPEQVKSEKLKDLFDYSPPLHKNLDAREKSTFREESPLRIKMIASDSHRPEVKLKMAPVPLDDS
          VKKETQSPEQVKSEKLKDLFDYSPPLHKNLD..EKSTFREESPLRIKMIASDSHRPEVKLKMAPVPLDDS
Retrocopy VKKETQSPEQVKSEKLKDLFDYSPPLHKNLDE*EKSTFREESPLRIKMIASDSHRPEVKLKMAPVPLDDS

Parental  NRPASLTKDRLLASTLVHSVKKEQEFRSIFDHIKLPQASKSTSESFIQHIVSLVHHVKEQYFKSAAMTLN
          NRPASLTKDR.LASTLVHSVKKEQEF.SIFDHIKLPQASKSTSESFI.HIV.LVHHVKEQYFKSAAMTLN
Retrocopy NRPASLTKDRWLASTLVHSVKKEQEF*SIFDHIKLPQASKSTSESFI*HIVFLVHHVKEQYFKSAAMTLN

Parental  ERFTSYQKATEEHSTRQKSPEIHRRIDISPSTLRKHTRLAGEERVFKEENQKGDKKLRCDSADLRHDIDR
          .RFTS.QKATEEHST.QKSPEIHRRIDISPSTLRKHT.LAG.ERVFKEENQKGDKKLRCDSADL.HDIDR
Retrocopy KRFTSHQKATEEHSTWQKSPEIHRRIDISPSTLRKHTHLAGDERVFKEENQKGDKKLRCDSADLQHDIDR

Parental  RRKERSKERGDSKGSRESSGSRKQEKTPKDYKEYKSYKDDSKHK-REQDHSRSSSSSASPSSPSSREEKE
          .RKERSKERG.SKG.RESSGSRKQEKTPKDYKEYKSYKDDSKHK.REQDHSRSSSSS.SPSSPSS.....
Retrocopy CRKERSKERGNSKGPRESSGSRKQEKTPKDYKEYKSYKDDSKHKNREQDHSRSSSSSPSPSSPSSXXXXX

Parental  SKKEREEEFKTHHEMKEYSGFAGVSRPRGTFFRIRGRGRARGVFAGTNT
          ........FKTHHEMKEYSGFAGVS.P.GTFFRIRGRGR.RGVFAGTNT
Retrocopy XXXXXXXXFKTHHEMKEYSGFAGVSQP*GTFFRIRGRGRDRGVFAGTNT

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	92.93 RPM
SRP007412_cerebellum	0.04 RPM	100.90 RPM
SRP007412_heart	0.03 RPM	17.42 RPM
SRP007412_kidney	0.04 RPM	71.96 RPM
SRP007412_liver	0.00 RPM	64.10 RPM
SRP007412_testis	0.10 RPM	186.17 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_2279 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2279 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 7 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Felis catus	ENSFCAG00000027614	1 retrocopy	retro_fcat_978,
Homo sapiens	ENSG00000029363	1 retrocopy	retro_hsap_3364,
Gorilla gorilla	ENSGGOG00000001824	1 retrocopy	retro_ggor_2279 ,
Macaca mulatta	ENSMMUG00000003710	1 retrocopy	retro_mmul_2102,
Pongo abelii	ENSPPYG00000017032	1 retrocopy	retro_pabe_2767,
Pan troglodytes	ENSPTRG00000018635	1 retrocopy	retro_ptro_2287,
Tupaia belangeri	ENSTBEG00000014886	1 retrocopy	retro_tbel_628,