RetrogeneDB ID: retro_ggor_2575

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 7:23851365..23852160(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CLK2
• Ensembl ID: ENSGGOG00000009438
• Aliases: None
• Description: None

Sequence

>retro_ggor_2575
TATCGGAGCCGAAAATATAAGCAACGAAGAAGCCTTTCCTGGTCAAGTAGTAGTGACCGGACACGACGGCGCCGGCGAGA
GGACAGCTACCATGTCCGGAGGAGGTGCAGCCGGACATTTAGCCGCTCGTCTTCGCAGCACAGCAGCCGCAAAGCCAAGA
GTGTAGAGGACGACGCTGAGGGCCACCTCATCTACCACGTCGGGGACTGGCTACAAGAGCGATATGAAATCGTTAGCACC
TTAGGAAAGGGGACCTTCGGCAGAGTTGTACAATGTGTTGACCATCGCAGGGGTGGGGCTCGAGTTGCCCTGAAGATCAT
TAAGAATGTGGAGAAGTATAAGGAAGCAGCTCGACTTGAGATCAACGTGCTGGAGAAAATCAACGAGAAAGACCCTGGCA
AGAACCTCTGTGTCCAGATGTTTGACTGGTTCGACTACCATGGCCACATGTGTATCTCCTTGGAGCTTCTGGGCCTTAGC
ACCTTCGATTTCCTCAAAGACAACAACCACCTGCCCTACCCCATCCACCAAGTGCACCACATGGCCTTCCAGCTGTGCCA
GGCTGTCAAGTTCCTCCATGATAACAAGCTGACACATACAGACCTCAAGCCTGAAAATATTCTGTTTGTGAATTCAGACT
ATGAGCTCACCTACAACCTAGAGAAGAAGCGACATGAGCGCAGTGTGAAGAGCACAGCTGTGCGGGTGGGAGACTTCGGC
AGTGCCACCTTTGACCATGAGCACCATAGCACCATTGTCTCCACTCGCCATTACCGAGCACCAGAAGTCATCCTT

Alignment

ORF - retro_ggor_2575 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.47 %
• Parental protein coverage: 53.11 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  YYDTDYRHSYEYQRENSSYRSQHSSRR-KHRRRRRRSRTFSRSSSQHSSRRAKSVEDDAEGHLIYHVGDW
          Y....Y..........SS.R.....R......RRR.SRTFSRSSSQHSSR.AKSVEDDAEGHLIYHVGDW
Retrocopy YRSRKYKQRRSLSWSSSSDRTRRRRREDSYHVRRRCSRTFSRSSSQHSSRKAKSVEDDAEGHLIYHVGDW

Parental  LQERYEIVSTLGEGTFGRVVQCVDHRRGGARVALKIIKNVEKYKEAARLEINVLEKINEKDPDNKNLCVQ
          LQERYEIVSTLG.GTFGRVVQCVDHRRGGARVALKIIKNVEKYKEAARLEINVLEKINEKDP..KNLCVQ
Retrocopy LQERYEIVSTLGKGTFGRVVQCVDHRRGGARVALKIIKNVEKYKEAARLEINVLEKINEKDP-GKNLCVQ

Parental  MFDWFDYHGHMCISFELLGLSTFDFLKDNNYLPYPIHQVRHMAFQLCQAVKFLHDNKLTHTDLKPENILF
          MFDWFDYHGHMCIS.ELLGLSTFDFLKDNN.LPYPIHQV.HMAFQLCQAVKFLHDNKLTHTDLKPENILF
Retrocopy MFDWFDYHGHMCISLELLGLSTFDFLKDNNHLPYPIHQVHHMAFQLCQAVKFLHDNKLTHTDLKPENILF

Parental  VNSDYELTYNLEKKRDERSVKSTAVRVVDFGSATFDHEHHSTIVSTRHYRAPEVIL
          VNSDYELTYNLEKKR.ERSVKSTAVRV.DFGSATFDHEHHSTIVSTRHYRAPEVIL
Retrocopy VNSDYELTYNLEKKRHERSVKSTAVRVGDFGSATFDHEHHSTIVSTRHYRAPEVIL

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	22.44 RPM
SRP007412_cerebellum	0.04 RPM	38.73 RPM
SRP007412_heart	0.00 RPM	9.79 RPM
SRP007412_kidney	0.04 RPM	41.71 RPM
SRP007412_liver	0.05 RPM	28.04 RPM
SRP007412_testis	9.63 RPM	27.97 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_2575 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2575 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 6 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000176444	1 retrocopy	retro_hsap_3827,
Gorilla gorilla	ENSGGOG00000006422	1 retrocopy	retro_ggor_2821,
Gorilla gorilla	ENSGGOG00000009438	1 retrocopy	retro_ggor_2575 ,
Nomascus leucogenys	ENSNLEG00000012062	2 retrocopies	retro_nleu_2126, retro_nleu_3112,
Pan troglodytes	ENSPTRG00000001419	1 retrocopy	retro_ptro_2604,
Tupaia belangeri	ENSTBEG00000000216	2 retrocopies	retro_tbel_4081, retro_tbel_4274,