RetrogeneDB ID: retro_ggor_3027

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: X:67158171..67159026(-)
• Located in intron of: ENSGGOG00000005915

Retrocopy information

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

Parental gene information

• Parental gene symbol: CNOT7
• Ensembl ID: ENSGGOG00000015762
• Aliases: None
• Description: None

Sequence

>retro_ggor_3027
ATGCCAGCGGCAACTGTAGATCATAGCCAAAGAATTTGTGAAGTTTGGGCTTGCAACGTGGATGAAGAGATGAAGAAAAT
TCGTCAAGTTATCCGAAAATATAATTACGTTGCTATGGACACCGAGTTTCCAGGTGTGGTTGCAAGACCCACTGGAGAAT
TCAGGAGCAATGCTGACTATCAATACCAACTATTGTGGTGTAATGTAGACTTGTTAAAGATAATTCAACTAGGACTGACA
TTTATAAATGAGCAAGGAGAATACCCTCCAGGAACTTCAACTTGGCAGTTTAATTTTAAATTTAATTTGACAGAGGACAT
ATATGCCCAGAACTCTATAGAGCTACTAACAACATCTGGTATCCAGTTTAAAAAACATGATGAAGAAGGAATTGAGACCC
AGTACTTTGCAGAACTTCTTATGACTTCAGGAGTGGTCCTCTGTGAAGGGGTCAAATGGTTGTCATTTCACAGCAGTTAC
AACTTTGGCTATTTAATCAAAATGCTGACCAACTCTAACTTGCCTGAAGAAGAACTTGACTTCTTTGAGATCCTTCGATT
GTTTTTACCTGTCATTTATGATGTGAATTACCTCATGAAGAGCTGCAAACATCTCAAAGATGGATTACAGGAGGTGGCAG
AACAGTTAGAGCTGGCATAGATAGGACCACAACATCAGGCAGGATCTAATTCATTGCTCACAGGAATGGCCTTTTTCAAA
ATGAGAGGAATGTTCTTTGAAGATCATACTGATGATGCCAAATATTGTGGTCATTTGTATGGCCTTGGTTCTGGTTCATC
CTATGTACAGAATGGCACAGGGAATGCATATGAAGAAGAAGCCAACAAGCAGTCA

Alignment

ORF - retro_ggor_3027 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.33 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MPAATVDHSQRICEVWACNLDEEMKKIRQVIRKYNYVAMDTEFPGVVARPIGEFRSNADYQYQLLRCNVD
          MPAATVDHSQRICEVWACN.DEEMKKIRQVIRKYNYVAMDTEFPGVVARP.GEFRSNADYQYQLL.CNVD
Retrocopy MPAATVDHSQRICEVWACNVDEEMKKIRQVIRKYNYVAMDTEFPGVVARPTGEFRSNADYQYQLLWCNVD

Parental  LLKIIQLGLTFMNEQGEYPPGTSTWQFNFKFNLTEDMYAQDSIELLTTSGIQFKKHEEEGIETQYFAELL
          LLKIIQLGLTF.NEQGEYPPGTSTWQFNFKFNLTED.YAQ.SIELLTTSGIQFKKH.EEGIETQYFAELL
Retrocopy LLKIIQLGLTFINEQGEYPPGTSTWQFNFKFNLTEDIYAQNSIELLTTSGIQFKKHDEEGIETQYFAELL

Parental  MTSGVVLCEGVKWLSFHSGYDFGYLIKILTNSNLPEEELDFFEILRLFFPVIYDVKYLMKSCKNLKGGLQ
          MTSGVVLCEGVKWLSFHS.Y.FGYLIK.LTNSNLPEEELDFFEILRLF.PVIYDV.YLMKSCK.LK.GLQ
Retrocopy MTSGVVLCEGVKWLSFHSSYNFGYLIKMLTNSNLPEEELDFFEILRLFLPVIYDVNYLMKSCKHLKDGLQ

Parental  EVAEQLELERIGPQHQAGSDSLLTGMAFFKMREMFFEDHIDDAKYCGHLYGLGSGSSYVQNGTGNAYEEE
          EVAEQLEL..IGPQHQAGS.SLLTGMAFFKMR.MFFEDH.DDAKYCGHLYGLGSGSSYVQNGTGNAYEEE
Retrocopy EVAEQLELA*IGPQHQAGSNSLLTGMAFFKMRGMFFEDHTDDAKYCGHLYGLGSGSSYVQNGTGNAYEEE

Parental  ANKQS
          ANKQS
Retrocopy ANKQS

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	0.24 RPM	24.41 RPM
SRP007412_cerebellum	0.08 RPM	24.35 RPM
SRP007412_heart	0.03 RPM	4.28 RPM
SRP007412_kidney	0.04 RPM	36.88 RPM
SRP007412_liver	0.11 RPM	22.32 RPM
SRP007412_testis	0.21 RPM	44.86 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_3027 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_3027 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000000677	4 retrocopies	retro_chof_1431, retro_chof_1581, retro_chof_822, retro_chof_963,
Gorilla gorilla	ENSGGOG00000015762	2 retrocopies	retro_ggor_282, retro_ggor_3027 ,
Monodelphis domestica	ENSMODG00000019055	2 retrocopies	retro_mdom_1898, retro_mdom_802,
Oryctolagus cuniculus	ENSOCUG00000014589	1 retrocopy	retro_ocun_118,
Sarcophilus harrisii	ENSSHAG00000011828	2 retrocopies	retro_shar_103, retro_shar_631,