RetrogeneDB ID: retro_btau_753

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: 19:8875885..8876160(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: OSTC
• Ensembl ID: ENSBTAG00000011611
• Aliases: OSTC, DC2
• Description: Oligosaccharyltransferase complex subunit OSTC [Source:UniProtKB/Swiss-Prot;Acc:Q2KID7]

Sequence

>retro_btau_753
ATGGAGAGTTTGGACCGAGTCCCGTTCTTGGTGCTCGAATGCCCGAACCTGAAGCTGAAGAAGCCGCCCTGGGTGCACAT
GCCGTCGGCTACGATGGTGTGCGCTCTGGTGGTGGTGTCTTACTTCCTCCCTACTGGAGGGATGCGTTGTGATGTTATTG
TTGAACCTTCAAGTGTTGGTTCAGTGACTGATGAACACGGACATCAGAGACCAGTAGCTTTCTTGGCCTAAATGGACAGT
ATGTTATGGAAGGACTTGCATCCAGCTTCCTGTTT

Alignment

ORF - retro_btau_753 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.21 %
• Parental protein coverage: 63.09 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MESLYRVPFLVLECPNLKLKKPPWVHMPSAMTVYALVVVSYFLITGGIIYDVIVEPPSVGSVTDEHGHQR
          MESL.RVPFLVLECPNLKLKKPPWVHMPSA..V.ALVVVSYFL.TGG...DVIVEP.SVGSVTDEHGHQR
Retrocopy MESLDRVPFLVLECPNLKLKKPPWVHMPSATMVCALVVVSYFLPTGGMRCDVIVEPSSVGSVTDEHGHQR

Parental  PVA-FLAYRVNGQYIMEGLASSFLF
          PVA.FL....NGQY.MEGLASSFLF
Retrocopy PVA<FLG--LNGQYVMEGLASSFLF

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	80.24 RPM
ERP005899_muscle	0.00 RPM	71.48 RPM
SRP017611_brain	0.00 RPM	10.83 RPM
SRP017611_kidney	0.24 RPM	30.58 RPM
SRP017611_liver	0.00 RPM	132.44 RPM
SRP030211_testis	0.00 RPM	11.19 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_753 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_753 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_753 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 11 parental genes, and 33 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000011611	1 retrocopy	retro_btau_753 ,
Callithrix jacchus	ENSCJAG00000016002	3 retrocopies	retro_cjac_121, retro_cjac_2981, retro_cjac_324,
Dasypus novemcinctus	ENSDNOG00000011172	2 retrocopies	retro_dnov_12, retro_dnov_1973,
Homo sapiens	ENSG00000198856	7 retrocopies	retro_hsap_1746, retro_hsap_2013, retro_hsap_2972, retro_hsap_3598, retro_hsap_3686, retro_hsap_376, retro_hsap_4246,
Gorilla gorilla	ENSGGOG00000026873	6 retrocopies	retro_ggor_1457, retro_ggor_2060, retro_ggor_215, retro_ggor_2427, retro_ggor_370, retro_ggor_385,
Loxodonta africana	ENSLAFG00000026381	7 retrocopies	retro_lafr_1046, retro_lafr_17, retro_lafr_222, retro_lafr_231, retro_lafr_444, retro_lafr_549, retro_lafr_618,
Myotis lucifugus	ENSMLUG00000000478	2 retrocopies	retro_mluc_1366, retro_mluc_1511,
Monodelphis domestica	ENSMODG00000020599	1 retrocopy	retro_mdom_428,
Oryctolagus cuniculus	ENSOCUG00000011056	2 retrocopies	retro_ocun_1318, retro_ocun_7,
Pan troglodytes	ENSPTRG00000024222	1 retrocopy	retro_ptro_34,
Tursiops truncatus	ENSTTRG00000003446	1 retrocopy	retro_ttru_582,