RetrogeneDB ID: retro_btau_634

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: 16:679167..679703(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ANXA2
• Ensembl ID: ENSBTAG00000009615
• Aliases: None
• Description: Annexin A2 [Source:UniProtKB/Swiss-Prot;Acc:P04272]

Sequence

>retro_btau_634
ATGTCTCCTGTTTCTGAATTTCTGTGCAAGCCCAGCATGAAGGGTAATCACACTACACCTTTAAGTACAGACAGGTCAGT
CAAAGCATAGAACAACTCTGATGCTGAGTAGAATGCTTTGAACATTGAAACAGCCATCAAGACCAAAGGTATGCATGCGG
TTACCATCATCCACATTTTGACCAAATGCGGCAATGAAAAGAGACAGGATATTGCCTACCATAGAAGGACCAAAAAGAAA
CTTGCATCAGCACTGAAGTCAGCCTTGTCCAGCCACCTAAAGATGGTGATTTGAGAACTATTGAAAACACTTGCTCAGTA
TTATGCTTCTGATTTGAAAACCTCCGTGAAGGGGCTGGGGTGCAATGAGGACTCCCTGAGATTATTTGCTCAAGGACCAA
CCAGGAGCTACAGAAAATTAACAGAGTCTACAAGGGAATGTACAAAATTGATCTGGAGAAGGACATTATTTCTGAAACAT
CTGGTGACTTCTGCAAGTAGTCAGTTGCCCCTGTAAAGGGTAGAAGAGGAGAGGAT

Alignment

ORF - retro_btau_634 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 67.76 %
• Parental protein coverage: 53.69 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MSTVHEILCKLSLEGDHSTPPSAYGSVKAYTNFDAERDALNIETAIKTKGVDEVTIVNILTNRSNEQRQD
          MS.V.E.LCK.S..G.H.TP.S...SVKA..N.DAE..ALNIETAIKTKG...VTI..ILT...NE.RQD
Retrocopy MSPVSEFLCKPSMKGNHTTPLSTDRSVKA*NNSDAE*NALNIETAIKTKGMHAVTIIHILTKCGNEKRQD

Parental  IAFAYQRRTKKELASALKSALSGHLETVILGLLKTPAQYDASELKASMK-GLGTDEDSLIEIICSRTNQE
          IA..Y.RRTKK.LASALKSALS.HL..VI..LLKT.AQY.AS.LK.S.K.G.G.....L.EIICSRTNQE
Retrocopy IA--YHRRTKKKLASALKSALSSHLKMVI*ELLKTLAQYYASDLKTSVK<GAGV-Q*GLPEIICSRTNQE

Parental  LQEINRVYKEMYKTDLEKDIVSDTSGDFRKLMVALAKGRRAED
          LQ.INRVYK.MYK.DLEKDI.S.TSGDF.K..VA..KGRR.ED
Retrocopy LQKINRVYKGMYKIDLEKDIISETSGDFCK*SVAPVKGRRGED

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	49.46 RPM
ERP005899_muscle	0.00 RPM	424.37 RPM
SRP017611_brain	0.00 RPM	28.78 RPM
SRP017611_kidney	0.00 RPM	119.97 RPM
SRP017611_liver	0.00 RPM	111.15 RPM
SRP030211_testis	0.00 RPM	15.18 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_634 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_634 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_634 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 12 parental genes, and 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000008055	2 retrocopies	retro_amel_1531, retro_amel_1836,
Bos taurus	ENSBTAG00000009615	2 retrocopies	retro_btau_634 , retro_btau_985,
Bos taurus	ENSBTAG00000015978	1 retrocopy	retro_btau_544,
Bos taurus	ENSBTAG00000021746	1 retrocopy	retro_btau_308,
Canis familiaris	ENSCAFG00000016686	3 retrocopies	retro_cfam_1631, retro_cfam_367, retro_cfam_707,
Equus caballus	ENSECAG00000012670	1 retrocopy	retro_ecab_759,
Felis catus	ENSFCAG00000007862	2 retrocopies	retro_fcat_594, retro_fcat_709,
Macropus eugenii	ENSMEUG00000008980	3 retrocopies	retro_meug_1000, retro_meug_312, retro_meug_389,
Monodelphis domestica	ENSMODG00000011604	1 retrocopy	retro_mdom_1471,
Mustela putorius furo	ENSMPUG00000000762	2 retrocopies	retro_mputfur_73, retro_mputfur_79,
Pan troglodytes	ENSPTRG00000007132	2 retrocopies	retro_ptro_2106, retro_ptro_81,
Tursiops truncatus	ENSTTRG00000007705	1 retrocopy	retro_ttru_1725,