RetrogeneDB ID: retro_btau_985

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: 22:5817298..5818284(-)
• 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_985
ATGTCTACCATTCTTGAAATTCTGCCCAAGCTCACCTTATAGGGTGATCACTTCACACCTCCAAGTGCACATGAGTTAGT
CAAAGCATACACCAACTTTCATGCTGAGTGGGATGCTCTGAACATTGAGACAACCATCAAGACCAAAGGTGTGGATGAGG
TCACCATTGTCAACATCCTGACCAACCGCAGCAATGAACAGAGCCAGGATATCACCTTCGCCTACCAGTGAAGGACCAAG
AAGGAACTTGCATCAGCACTGAAGTCAGCCTTGTCTCTGCCACCTGGAGGCGGTGATTTTGGGCCTATTGAAAATACCTG
CTCTGTATGCTGCTCCTGAGCTGAATGCATCCATGAAGGGACTGGGGGTTGATGAGGACTCTCTCATTGAGATCATCTGC
TTAAGGACCAACCAGGAGCTGCAGGAAATCAACAGAGTCTACATGGAAGTGTACAAGACCGGTCTGGAGAGGGACATTGT
TTCTAACACATCTGGCGACTTCCACAAGCTGATGGTTGCCCTCACAAAGGGTGGAAGAGCAGAGAATGGCTCTGTTGTTG
ATTATGAACTGACTGACCAGGACTCCCGCTATCTCTATGATGCTGGTGTGAAGAGGAAAGAAACTAATGTTCCCTAGTGT
ATCAGCATCATGATTGAGTGGAGCGGGTGTCACTTCCTGAAAGTATTTGAAAGGTAGCAGAGCTACAGCCCTGATGACAT
GCTGGAGAGCATCAAGAAGGAGGTCAAAGGTGACCTGGAAAATGTTTTCCTGAACCTGGTCCAGTGCACTCAGAACAAGC
CCCTGTATTTTGCTGACAGACTGTACGTCTCCATGAATGGCTAGGGCACTCGTGGTAAAGTCCTGATTAGAATCCCCCAT
AGTGGCATGGACATGTTGAAAATAAGATCTGATTTCAAGTAAAGTTCGGCAAGTCCCTGTACTACTACATTCAGCAAGAC
ACAAGAGCGACTACTAGAAAGCGCTG

Alignment

ORF - retro_btau_985 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.34 %
• Parental protein coverage: 97.64 %
• Number of stop codons detected: 6
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MSTVHEILCKLSLEGDHSTPPSAYGSVKAYTNFDAERDALNIETAIKTKGVDEVTIVNILTNRSNEQRQD
          MST..EIL.KL.L.GDH.TPPSA...VKAYTNF.AE.DALNIET.IKTKGVDEVTIVNILTNRSNEQ.QD
Retrocopy MSTILEILPKLTL*GDHFTPPSAHELVKAYTNFHAEWDALNIETTIKTKGVDEVTIVNILTNRSNEQSQD

Parental  IAFAYQRRTKKELASALKSALS-GHLETVILGLLKTPAQYDASELKASMKGLGTDEDSLIEIICSRTNQE
          I.FAYQ.RTKKELASALKSALS..HLE.VILGLLK.PA.Y.A.EL.ASMKGLG.DEDSLIEIIC.RTNQE
Retrocopy ITFAYQ*RTKKELASALKSALS>CHLEAVILGLLKIPALYAAPELNASMKGLGVDEDSLIEIICLRTNQE

Parental  LQEINRVYKEMYKTDLEKDIVSDTSGDFRKLMVALAKGRRAEDGSVIDYELIDQDARDLYDAGVKRKGTD
          LQEINRVY.E.YKT.LE.DIVS.TSGDF.KLMVAL.KG.RAE.GSV.DYEL.DQD.R.LYDAGVKRK.T.
Retrocopy LQEINRVYMEVYKTGLERDIVSNTSGDFHKLMVALTKGGRAENGSVVDYELTDQDSRYLYDAGVKRKETN

Parental  VPKWISIMTERSVCHLQKVFERYKSYSPYDMLESIKKEVKGDLENAFLNLVQCIQNKPLYFADRLYDSMK
          VP..ISIM.E.S.CH..KVFER..SYSP.DMLESIKKEVKGDLEN.FLNLVQC.QNKPLYFADRLY.SM.
Retrocopy VP*CISIMIEWSGCHFLKVFER*QSYSPDDMLESIKKEVKGDLENVFLNLVQCTQNKPLYFADRLYVSMN

Parental  GKGTRDKVLIRIMVSRSEVDMLKIRSEFK-KKYGKSLYYYIQQDT-KGDYQKAL
          G.GTR.KVLIRI....S..DMLKIRS.FK..K.GKSLYYYIQQDT.K.DY.KAL
Retrocopy G*GTRGKVLIRI--PHSGMDMLKIRSDFK<VKFGKSLYYYIQQDT<KSDY*KAL

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	0.55 RPM	15.18 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_985 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_985 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_985 has 0 orthologous retrocopies within eutheria group .

---

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,