RetrogeneDB ID: retro_btau_19

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: X:81941607..81942135(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSBTAG00000032003
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: CNBP
• Ensembl ID: ENSBTAG00000012159
• Aliases: None
• Description: Cellular nucleic acid-binding protein [Source:UniProtKB/Swiss-Prot;Acc:Q3T0Q6]

Sequence

>retro_btau_19
CCCACCACAGCCATGAGCAGTAAGGAGTGCTTCAAGTGTGGACGCGTTGGCCACTGGGCCCCGGCATGCTCTAAAGGAGG
AGGAGCTCGGGGGCGTGGAGCTAGAGGCCGTGGCCATGGAGCTCAGTGTAGTTCAACCACCCTACCCGTCATCTGTTACC
GCTGCGGTAAATTTGGTCATTATGCTAAGGACTGTGACCTTCTCGATGACATCTGCTACAACTGTGGGAAAAGTGGCCAC
ATTGCCAAAGACTGTGCCGAGCCTAAGCGAGAGGGAGAGCGTTGCTGTTACACCTGTGGCAGACCAGGCCATCTGGCTCG
TGATTGTGACCGTCAGGAAGAGCGGAAGTGCTACTCTTGCGGCAAAAGTGGCCACATTCAAAAATACTGCACCCAAGTCA
AGTGCTACCGTTGTGGCGAGATTGGCCACGTGGCCATCAATTGTAGAAAGATGAATGAGGTCAACTGCTACCGCTGTGGC
GAATCCGGACATCTAACCCGGGAATGCCCAATTGAGGCTAACACTTAA

Alignment

ORF - retro_btau_19 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.56 %
• Parental protein coverage: 98.82 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSSNECFKCGRSGHWARECPTGGG-RGRGMRSRGRGFQFVSSSLPDICYRCGESGHLAKDCDLQEDACYN
          MSS.ECFKCGR.GHWA..C..GGG.RGRG.R.RG.G.Q..S..LP.ICYRCG..GH.AKDCDL..D.CYN
Retrocopy MSSKECFKCGRVGHWAPACSKGGGARGRGARGRGHGAQCSSTTLPVICYRCGKFGHYAKDCDLLDDICYN

Parental  CGRGGHIAKDCKEPKREREQCCYNCGKPGHLARDCDHADEQKCYSCGEFGHIQKDCTKVKCYRCGETGHV
          CG..GHIAKDC.EPKRE.E.CCY.CG.PGHLARDCD...E.KCYSCG..GHIQK.CT.VKCYRCGE.GHV
Retrocopy CGKSGHIAKDCAEPKREGERCCYTCGRPGHLARDCDRQEERKCYSCGKSGHIQKYCTQVKCYRCGEIGHV

Parental  AINCSKTSEVNCYRCGESGHLARECTIEA
          AINC.K..EVNCYRCGESGHL.REC.IEA
Retrocopy AINCRKMNEVNCYRCGESGHLTRECPIEA

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
ERP005899_liver	0.00 RPM	86.08 RPM
ERP005899_muscle	0.05 RPM	136.57 RPM
SRP017611_brain	0.09 RPM	89.90 RPM
SRP017611_kidney	0.00 RPM	115.05 RPM
SRP017611_liver	0.00 RPM	67.66 RPM
SRP030211_testis	20.96 RPM	143.19 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_19 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_19 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_19 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Oryctolagus cuniculus	retro_ocun_208

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Parental genes homology:

Parental genes homology involve 11 parental genes, and 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000012159	1 retrocopy	retro_btau_19 ,
Callithrix jacchus	ENSCJAG00000017430	1 retrocopy	retro_cjac_4079,
Equus caballus	ENSECAG00000009512	1 retrocopy	retro_ecab_1072,
Echinops telfairi	ENSETEG00000008408	5 retrocopies	retro_etel_12, retro_etel_1791, retro_etel_2192, retro_etel_237, retro_etel_583,
Felis catus	ENSFCAG00000028042	2 retrocopies	retro_fcat_1922, retro_fcat_2001,
Loxodonta africana	ENSLAFG00000002502	1 retrocopy	retro_lafr_49,
Oryctolagus cuniculus	ENSOCUG00000008696	2 retrocopies	retro_ocun_1626, retro_ocun_208,
Otolemur garnettii	ENSOGAG00000013898	1 retrocopy	retro_ogar_144,
Pteropus vampyrus	ENSPVAG00000015070	1 retrocopy	retro_pvam_908,
Sorex araneus	ENSSARG00000011874	1 retrocopy	retro_sara_397,
Sarcophilus harrisii	ENSSHAG00000017132	1 retrocopy	retro_shar_666,