RetrogeneDB ID: retro_btau_855

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: 2:11371452..11372469(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C10ORF26
• Ensembl ID: ENSBTAG00000014336
• Aliases: None
• Description: None

Sequence

>retro_btau_855
CAGGATAAGGAAACCTGCATGGGTACCAACAATCAAAGCTACATCTGTGACACAGGACACTGCTGTGGACAGTCTCAGTG
CTGCAACTACTACTATGAACTCTGGTGGTTCTGGCTCGTGTGGACCATCATCATCATCCTGAGCTGCTGCTGCGTCTGCC
ACCACCGCCGAGCCAAGCATCACCTTCAGTCCTAGCAGCGGCAGCATGACATCAACCTGATCGCCTATGGGGAAGCCCAC
AATTACTCAGCGCTGCCATTTTACTTCAGGTTTTTGCCAAACTATTTACTACCTCCTTATGAGGAAGTGGTGAACCGACC
TCCAACTCCTCCCCCAGCATACAGTGCCTTCCAGCTCCAGCAGCAGCAGCAGCAGCAGCAGCTACCTGCACAGTGTGGCT
CTGCAGGCAGCAGCCCCCCAGGCACCGACCCCACCAGGGACTCCCAGGGGGCTCAGAGCAGCCCCTTGTCCGGGCCCAGC
AGAAGTAGCACGCGACTCCCAAGCGTCACTGACCCTGAGCCCTCTGACGTGCCAGCAGACCCAGCAGCCACCAAAACCTC
TGGCATGGAGCCCAGCGGCTCTGTGGCTGGCCTGGGGGAGGTGGACCCCACGGCCTTCCTGGACAAGGATTCCGAATGTA
AGGAGGAGCTTCTGAAAGAGTACAGCTCTGAGCAGGGCAGCGCCCTCCCTGACAACAAAGACAAGACACCTGGCAGACAC
CGCCGCTTCACAGGTGACTCAGGCATCGAGGTGTGTGTGTGCAACCGGGGCCACCATGATGATGACCTCATAGAGTTCAA
TGCACTCATCTACGATGCTCTGGACGGGCCCCTGAACTTCTGCGACAGCTGCAATGTGCGGCCACCTGGCGACTAGGAGG
AAGGTCTCTGCTAGCCCTCCGAGGAGCAGGCCCGGGAGCCCGGGCATCCACACCTGCCAAGGCCGCCTGCCTGCCTGCTG
CTGAACACCATCAACGAGCAGGACTCCCCAAACTCCCAGAGCAGCAGCTCCCCCAGC

Alignment

ORF - retro_btau_855 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.74 %
• Parental protein coverage: 97.69 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RDKETCVGTNNQSYICDTGHCCGQSQCCNYYYELWWFWLVWTIIIILSCCCVCHHRRAKHRLQAQQRQHE
          .DKETC.GTNNQSYICDTGHCCGQSQCCNYYYELWWFWLVWTIIIILSCCCVCHHRRAKH.LQ..QRQH.
Retrocopy QDKETCMGTNNQSYICDTGHCCGQSQCCNYYYELWWFWLVWTIIIILSCCCVCHHRRAKHHLQS*QRQHD

Parental  INLIAYREAHNYSALPFYFRFLPNYLLPPYEEVVNRPPTPPPPYSAFQLQQQQQQQQLPAQCGSAGSSPP
          INLIAY.EAHNYSALPFYFRFLPNYLLPPYEEVVNRPPTPPP.YSAF...........PAQCGSAGSSPP
Retrocopy INLIAYGEAHNYSALPFYFRFLPNYLLPPYEEVVNRPPTPPPAYSAFXXXXXXXXXXXPAQCGSAGSSPP

Parental  GTDPTRGSQGAQSSPLSGPSRSSTRPPSVTDPEPSDMPADPAATKTSGMEPGGSVAGLGEVDPTAFLDKD
          GTDPTR.SQGAQSSPLSGPSRSSTR.PSVTDPEPSD.PADPAATKTSGMEP.GSVAGLGEVDPTAFLDKD
Retrocopy GTDPTRDSQGAQSSPLSGPSRSSTRLPSVTDPEPSDVPADPAATKTSGMEPSGSVAGLGEVDPTAFLDKD

Parental  SECKEELLKEYSSEQGSALPDNKDKTPGRHRRFTGDSGIEVCVCNRGHHDDDLKEFNALIDDALDGPLDF
          SECKEELLKEYSSEQGSALPDNKDKTPGRHRRFTGDSGIEVCVCNRGHHDDDL.EFNALI.DALDGPL.F
Retrocopy SECKEELLKEYSSEQGSALPDNKDKTPGRHRRFTGDSGIEVCVCNRGHHDDDLIEFNALIYDALDGPLNF

Parental  CDSCNVRPPGDEEEGLCQPSEEQAREPGHPHLPRPPACLLLNTINEQDSPNSQSSSSPS
          CDSCNVRPPGD.EEGLC.PSEEQAREPGHPHLPRPPACLLLNTINEQDSPNSQSSSSPS
Retrocopy CDSCNVRPPGD*EEGLC*PSEEQAREPGHPHLPRPPACLLLNTINEQDSPNSQSSSSPS

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	1.59 RPM
ERP005899_muscle	0.16 RPM	11.14 RPM
SRP017611_brain	0.27 RPM	6.85 RPM
SRP017611_kidney	0.24 RPM	14.58 RPM
SRP017611_liver	0.08 RPM	9.82 RPM
SRP030211_testis	0.01 RPM	8.22 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_855 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_855 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_855 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 8 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000014336	1 retrocopy	retro_btau_855 ,
Choloepus hoffmanni	ENSCHOG00000007532	1 retrocopy	retro_chof_1174,
Callithrix jacchus	ENSCJAG00000018079	1 retrocopy	retro_cjac_2235,
Homo sapiens	ENSG00000166272	1 retrocopy	retro_hsap_3774,
Macaca mulatta	ENSMMUG00000017596	1 retrocopy	retro_mmul_1640,
Pongo abelii	ENSPPYG00000002610	1 retrocopy	retro_pabe_3084,
Tupaia belangeri	ENSTBEG00000005555	1 retrocopy	retro_tbel_3660,
Tursiops truncatus	ENSTTRG00000012618	2 retrocopies	retro_ttru_138, retro_ttru_437,