RetrogeneDB ID: retro_ggor_7

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: X:10004498..10005713(-)
• Located in intron of: ENSGGOG00000010955

Retrocopy information

• Ensembl ID: ENSGGOG00000023785
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: ENSG00000078304
• Ensembl ID: ENSGGOG00000010878
• Aliases: None
• Description: None

Sequence

>retro_ggor_7
TTACGTCAGTGTTGCGTCCTCTTTGACTTCGTTTCTGATCCACTAAGTGACCTAAAGTGGAAGGAAGTAAAACGAGCTGC
TTTAAGTGAAATGGTAGAATATATCACCCATAATCGGAATGTGATCACAGAGCCTATTTACCCAGAAGTAGTCCATATGT
TTGCAGTTAACATGTTTCGAACATTACCACCTTCCTCCAATCCTACGGGAGCGGAATTTGACCCAGAGGAAGATGAACCA
ACGTTAGAAGCAGCCTGGCCTCATCTACAGCTTGTTTATGAATTTTTCTTAAGATTTTTAGAGTCTCCAGATTTCCAACC
TAATATAGCGAAGAAATATATTGATCAGAAGTTTGTATTGCAGCTTTTAGAGCTCTTTGACAGTGAAGATCCTCGGGAGA
GAGATTTTCTTAAAACCACCCTTCACAGAATCTATGGGAAATTCCTAGGCTTGAGAGCTTACATCAGAAAACAGATAAAT
AATATATTTTATAGGTTTATTTATGAAACAGAGCATCATAATGGCATAGCAGAGTTACTGGAAATATTGGGAAGTATAAT
TAATGGATTTGCCTTACCACTAAAAGAAGAGCACAAGATTTTCTTATTGAAGGTGTTACTACCTTTGCACAAAGTGAAAT
CTCTGAGTGTCTACCATCCCCAGCTGGCATACTGTGTAGTGCAGTTTTTAGAAAAGGACAGCACCCTCACGGAACCAGTG
GTGATGGCACTTTTCAAATACTGGCCAAAGACTCACAGTCCAAAAGAAGTAATGTTCTTAAACGAATTAGAAGAGATTTT
AGATGTCATTGAACCATCAGAATTTGTGAAGATCATGGAACCCCTCTTCCGGCAGTTGGCCAAATGTGTCTCCAGCCCAC
ACTTCCAGGTGGCAGAGCGAGCTCTCTATTACTGGAATAATGAATACATCATGAGTTTAATCAGTGACAACGCAGCGAAG
ATTCTGCCCATCATGTTTCCTTCCTTGTACCGCAACTCAAAGACCCATTGGAACAAGACAATACATGGCTTGATATACAA
CGCCCTGAAGCTCTTCATGGAGATGAACCAAAAGCTATTTGATGACTGTACACAACAGTTCAAAGCAGAGAAACTAAAAG
AGAAGCTAAAAATGAAAGAACGGGAAGAAGCATGGGTTAAAATAGAAAATCTAGCCAAAGCCAATCCCCAGGTACTAAAA
AAGAGAGTAACATGA

Alignment

ORF - retro_ggor_7 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 99.25 %
• Parental protein coverage: 75.19 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LRQCCVLFDFVSDPLSDLKWKEVKRAALSEMVEYITHNRNVITEPIYPEVVHMFAVNMFRTLPPSSNPTG
          LRQCCVLFDFVSDPLSDLKWKEVKRAALSEMVEYITHNRNVITEPIYPEVVHMFAVNMFRTLPPSSNPTG
Retrocopy LRQCCVLFDFVSDPLSDLKWKEVKRAALSEMVEYITHNRNVITEPIYPEVVHMFAVNMFRTLPPSSNPTG

Parental  AEFDPEEDEPTLEAAWPHLQLVYEFFLRFLESPDFQPNIAKKYIDQKFVLQLLELFDSEDPRERDFLKTT
          AEFDPEEDEPTLEAAWPHLQLVYEFFLRFLESPDFQPNIAKKYIDQKFVLQLLELFDSEDPRERDFLKTT
Retrocopy AEFDPEEDEPTLEAAWPHLQLVYEFFLRFLESPDFQPNIAKKYIDQKFVLQLLELFDSEDPRERDFLKTT

Parental  LHRIYGKFLGLRAYIRKQINNIFYRFIYETEHHNGIAELLEILGSIINGFALPLKEEHKIFLLKVLLPLH
          LHRIYGKFLGLRAYIRKQINNIFYRFIYETEHHNGIAELLEILGSIINGFALPLKEEHKIFLLKVLLPLH
Retrocopy LHRIYGKFLGLRAYIRKQINNIFYRFIYETEHHNGIAELLEILGSIINGFALPLKEEHKIFLLKVLLPLH

Parental  KVKSLSVYHPQLAYCVVQFLEKDSTLTEPVVMALLKYWPKTHSPKEVMFLNELEEILDVIEPSEFVKIME
          KVKSLSVYHPQLAYCVVQFLEKDSTLTEPVVMAL.KYWPKTHSPKEVMFLNELEEILDVIEPSEFVKIME
Retrocopy KVKSLSVYHPQLAYCVVQFLEKDSTLTEPVVMALFKYWPKTHSPKEVMFLNELEEILDVIEPSEFVKIME

Parental  PLFRQLAKCVSSPHFQVAERALYYWNNEYIMSLISDNAAKILPIMFPSLYRNSKTHWNKTIHGLIYNALK
          PLFRQLAKCVSSPHFQVAERALYYWNNEYIMSLISDNAAKILPIMFPSLYRNSKTHWNKTIHGLIYNALK
Retrocopy PLFRQLAKCVSSPHFQVAERALYYWNNEYIMSLISDNAAKILPIMFPSLYRNSKTHWNKTIHGLIYNALK

Parental  LFMEMNQKLFDDCTQQFKAEKLKEKLKMKEREEAWVKIENLAKANPQAQK
          LFMEMNQKLFDDCTQQFKAEKLKEKLKMKEREEAWVKIENLAKANPQ..K
Retrocopy LFMEMNQKLFDDCTQQFKAEKLKEKLKMKEREEAWVKIENLAKANPQVLK

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	0.14 RPM	53.37 RPM
SRP007412_cerebellum	0.16 RPM	25.33 RPM
SRP007412_heart	0.06 RPM	11.54 RPM
SRP007412_kidney	0.08 RPM	26.95 RPM
SRP007412_liver	0.08 RPM	20.65 RPM
SRP007412_testis	0.10 RPM	106.19 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_7 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_7 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Gorilla gorilla	ENSGGOG00000010878	2 retrocopies	retro_ggor_1850, retro_ggor_7 ,
Otolemur garnettii	ENSOGAG00000006274	1 retrocopy	retro_ogar_1944,