RetrogeneDB ID: retro_btau_320

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: 1:147370582..147371242(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ADIPOR2
• Ensembl ID: ENSBTAG00000009050
• Aliases: None
• Description: adiponectin receptor protein 2 [Source:RefSeq peptide;Acc:NP_001035589]

Sequence

>retro_btau_320
CACGCTCTCAGACCACACATGTACTTCACGCTCCCCCTTCAGGAGAAGGTGGTGTTTGGGATGTTCCTCCTGGGAGTGGT
GCTCGGCCTCAGCTTCTCCTGGCTATTTCACACCGTCTACTGTCATTCAGGGAAAGTCTCTTGGACTTTCTCAGAACTGG
ATTATGCAGGGATTGCCCTCCTGATTATGGGGAGCTTTGGCCCCTGGCTCTACTACTCCTTCTACTGCTCCCCACAGCCA
TGGCTCATCTACATCCATCGTCTGTGTTCTGGGCATCTCTGCCATCATCGTGGCACGGTGGGACCAGTTCACCACTCCTA
AGCACCGGCAGACAAGAGCAGGAGTGTTCCCGGGGCTTAGCTTGAGTGGCATCATGCCTACCATGCAGTTCACAATCACA
GAGGACTTCATCAAGGCCACCATGGTGGCCCAGATGGCTGGTTCTTCCTCATGGCTCTGATGTACATCGCCAGAGCCGGC
CTCTATGCCGCATGCGTTCCCGAGCGCTTCTTCCCTGGAAAATTCGACATATGCTTCCAGTCTCATCAGATCTTCCTTGT
CCTGGTAGCGGAAGCTGCCTTCACCCACTTCTATGGTGTCTCCAACCTTCAGGAGTTCTGATATGGCCTGGAAGGGGGCT
GTACTGATGACTCTCTCCTC

Alignment

ORF - retro_btau_320 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.23 %
• Parental protein coverage: 57.25 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  YMFRPNISFVAPLQEKVVFGLFFLGAILCLSFSWLFHTVYCHSEGVSRIFSKLDYSGIALLIMGSFVPWL
          ...RP...F..PLQEKVVFG.F.LG..L.LSFSWLFHTVYCHS..VS..FS.LDY.GIALLIMGSF.PWL
Retrocopy HALRPHMYFTLPLQEKVVFGMFLLGVVLGLSFSWLFHTVYCHSGKVSWTFSELDYAGIALLIMGSFGPWL

Parental  YYSFYCNPQPCFIYL-IVICVLGIAAIIVSQWDMFATPQYRGVRAGVFLGLGLSGIIPTLHYVISEGFLK
          YYSFYC.PQP..IY..IV.CVLGI.AIIV..WD.F.TP..R..RAGVF.GL.LSGI.PT....I.E.F.K
Retrocopy YYSFYCSPQPWLIYI>IV-CVLGISAIIVARWDQFTTPKHRQTRAGVFPGLSLSGIMPTMQFTITEDFIK

Parental  AATIGQI-GWLLLMAGLYITGAALYAARIPERFFPGKCDIWFHSHQLFHIFVVAGAFVHFHGVSNLQEFR
          A....Q..GW..LMA..YI..A.LYAA..PERFFPGK.DI.F.SHQ.F...V...AF.HF.GVSNLQEF.
Retrocopy ATMVAQM<GWFFLMALMYIARAGLYAACVPERFFPGKFDICFQSHQIFLVLVAEAAFTHFYGVSNLQEF*

Parental  FMVGGGCSEEDAL
          ....GGC.....L
Retrocopy YGLEGGCTDDSLL

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	19.32 RPM
ERP005899_muscle	0.00 RPM	87.21 RPM
SRP017611_brain	0.00 RPM	26.17 RPM
SRP017611_kidney	0.18 RPM	32.96 RPM
SRP017611_liver	0.00 RPM	60.26 RPM
SRP030211_testis	0.04 RPM	52.20 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_320 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_320 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_320 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
Bos taurus	ENSBTAG00000009050	1 retrocopy	retro_btau_320 ,
Choloepus hoffmanni	ENSCHOG00000012668	1 retrocopy	retro_chof_1133,
Callithrix jacchus	ENSCJAG00000000683	3 retrocopies	retro_cjac_2912, retro_cjac_3290, retro_cjac_504,
Loxodonta africana	ENSLAFG00000021355	1 retrocopy	retro_lafr_249,
Microcebus murinus	ENSMICG00000005653	1 retrocopy	retro_mmur_818,
Myotis lucifugus	ENSMLUG00000002211	1 retrocopy	retro_mluc_66,