RetrogeneDB ID: retro_ggor_164

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: X:22556829..22558107(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000034821
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: CBLL1
• Ensembl ID: ENSGGOG00000004921
• Aliases: None
• Description: None

Sequence

>retro_ggor_164
ATGAACAAGATGCCTGCTGGTGAACAAGAATGTGAATATAACAAAGAAAGGAAGTACTGCTCTAAAGGAGTTAAACTGGT
GACAAAAAAGAAAAAAATTCCTGGTTACCGTTGGGGGGACATTAAGATAAACATCATAGGTGAAAAGGATGATTTACCAA
TTCATTTCTGTGACAAATGTGATTTGCCTATTAAAATCTATGGGCGAATAATTCCATGCAAGCATGCTTTTTGCTATGAC
TGTGCTAATTTATATGACAAAGTCGGATATAAAGTATGTCCACGCTGTCGTTATCCTGTGCTGCGAATTGAGGCGCATAA
ACGAGGTTCTGTCTTCATGTGTAGTATTGTTCAGCAGTGCAAGAGAACATACTTGTCTCAGAAAAGCTTACAGGCTCATA
TCAAACGCCGCCATAAGAGAGCTCGAAAACAAGTTACCAGCGCTTCGCTTGAAAAAGTTCGTCCTCATATTGCTCCGCCA
CAAACTGAAATCTCTGAAATCCCTAAAAGACTGCAAGACAGGGACCATCTAAGCTATATTCCACCAGAGCAGCACACCAT
GGTGTCACTACCGTCTGTGCAACATATGCTACACGAGCAACATAATCAGCCACATAAGGATATTCAGGCTCCTCCCCCAG
AACTATCTCTAAGTCTGCCTTTTCCCATCCAGTGGGAAACCGTTAGTATTTTTACGAGAAAACATGGCAATTTAACAGTT
GATCATATTCAGAATAACTCAGATTCTGGTGCTAAGAAGCCAACACCTCCCGACTGTTATCCTGAGTATCAAAGTCAACC
AGCGGTATCGTCCCCTCATCATATTATACCTCAGAAACAGCATTATGCGCCACCTCCATCTCCAGCATCACCAGTAAACC
ATCAAATGCCATATCCTCCTCAGGATGTAGTTACTCCTAACTCGGTTCGTAGCCAAGTGCCAGCTCTAACCACGACCTAC
GATCCATCATCTGGATATATTATTGCAAAGGTGCCACCTGATATGAATTCTCCTCCACTACGTGCTCCCCAGTCTCAAAA
TGGTAATCCATCTGCAAGTGAGTTTGCTTCTCACCATTATAACCCTAACTTTTTACCTCAGTTCACCGAAAATCAAGAAA
CCTTGAGCCCTCAGTTTACACAAACAGATGCAATGGATCATAGAAGATGGCCTGCATGGAAACGACTGTCACCTTGTCCA
CCAACGCGGAGTCCACCTCCTTCAACCCTACATGGTCGATCACATCATTCATACCAGAGAAGACATAGACGGTATTAA

Alignment

ORF - retro_ggor_164 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 53.42 %
• Parental protein coverage: 59.06 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KAPPGDEEGFDYNEEERYDCKGGELFANQRRFPGHLFWDFQINILGEKDDTPVHFCDKCGLPIKIYGRMI
          K.P.G..E...YN.E..Y..KG..L.......PG....D..INI.GEKDD.P.HFCDKC.LPIKIYGR.I
Retrocopy KMPAGEQE-CEYNKERKYCSKGVKLVTKKKKIPGYRWGDIKINIIGEKDDLPIHFCDKCDLPIKIYGRII

Parental  PCKHVFCYDCAILHEKKGDKMCPGCSDPVQRIEQCTRGSLFMCSIVQGCKRTYLSQRDLQAHINHRHMRA
          PCKH.FCYDCA.L..K.G.K.CP.C..PV.RIE...RGS.FMCSIVQ.CKRTYLSQ..LQAHI..RH.RA
Retrocopy PCKHAFCYDCANLYDKVGYKVCPRCRYPVLRIEAHKRGSVFMCSIVQQCKRTYLSQKSLQAHIKRRHKRA

Parental  GKPVTRASLENVHPPIAPPPTEIPERFIMPPDKHHMSHIPPKQHIMMPPPPLQHVPHEHYNQPHEDIRAP
          .K.VT.ASLE.V.P.IAPP.TEI.E......D..H.S.IPP.QH.M...P..QH..HE..NQPH.DI.AP
Retrocopy RKQVTSASLEKVRPHIAPPQTEISEIPKRLQDRDHLSYIPPEQHTMVSLPSVQHMLHEQHNQPHKDIQAP

Parental  PAELSMAPPPPRSVSQETFRISTRKHSNLITVPIQDDSNSGAREPPPPAPAPAHHHPEYQGQP--VVSHP
          P.ELS...P.P.....ET..I.TRKH.NL....IQ..S.SGA..P.PP...P..........P.......
Retrocopy PPELSLSLPFP--IQWETVSIFTRKHGNLTVDHIQNNSDSGAKKPTPPDCYPEYQSQPAVSSPHHIIPQK

Parental  HHIMPPQQHYAP
          .H..PP.....P
Retrocopy QHYAPPPSPASP

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	27.57 RPM
SRP007412_cerebellum	0.04 RPM	25.29 RPM
SRP007412_heart	0.03 RPM	4.88 RPM
SRP007412_kidney	0.00 RPM	12.88 RPM
SRP007412_liver	0.00 RPM	13.53 RPM
SRP007412_testis	6.22 RPM	45.27 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_164 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_164 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_49
Pan troglodytes	retro_ptro_67
Pongo abelii	retro_pabe_112
Canis familiaris	retro_cfam_2047

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Parental genes homology:

Parental genes homology involve 8 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000016379	1 retrocopy	retro_cjac_4046,
Homo sapiens	ENSG00000105879	1 retrocopy	retro_hsap_49,
Gorilla gorilla	ENSGGOG00000004921	1 retrocopy	retro_ggor_164 ,
Microcebus murinus	ENSMICG00000012936	1 retrocopy	retro_mmur_1635,
Nomascus leucogenys	ENSNLEG00000008660	1 retrocopy	retro_nleu_19,
Pongo abelii	ENSPPYG00000017904	1 retrocopy	retro_pabe_112,
Pan troglodytes	ENSPTRG00000019583	1 retrocopy	retro_ptro_67,
Rattus norvegicus	ENSRNOG00000007253	1 retrocopy	retro_rnor_1063,