RetrogeneDB ID: retro_btau_544

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: 14:43743244..43744282(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BT.70631
• Ensembl ID: ENSBTAG00000015978
• Aliases: ANXA1, p35
• Description: annexin A1 [Source:RefSeq peptide;Acc:NP_786978]

Sequence

>retro_btau_544
ATGGCAATGGGATCTGAATTCCTCAAGCAGGCCTGGTTTATTGAAAATGAAGAGCAGGAATACATTAAAACGGTGAAAGG
ATCCAAAGGTGGTCCTGGGTCAGCAGTGAGCCCCTATCCTACACTCAATCCATCCTCGGATGTTGAGGCCTTGCACAAAG
CAATCACAGTTAAAGGTGTGGATGAAGCAACCATCATTGAAATTCTGACTAAGAGAAACAATGCACAGCGTCAGCAGATC
AAAGCGGCCTATCTGCAGGAGAAAGGAAAGCCCCTGGATGAAGTTCTGAAGAAAGCCCTCCTCGGTCACCTTGAGGAAGT
TGTTTTGGCTCTATTGAAAACTCCAGCCCGGTTTGATGCCGAAGAGCTCCGTGCTGCCATGAAGGGCCTTGGGACTGATG
AAGACACTCTGAATGAAATTCTGGCATCAAGAGCTAACAGAGAAATCAGAGAAATTAACAGAGTCTATAGAGAAGAACTG
AAGAGAGATCTGGCTAAAGACATCGCCTCAGACACATCTGGAGATTATGAGAAGGCTTTGCTTTCTCTTGCTAAGGGTGA
CCAATCTGAGGAGCTTGCTGTAAATGACGACTTGGCTGATTCAGATGCCAGGGCCTTATATGAAGCAGGAGAAAGAAGAA
AAGGGACAGATGTGAATGTGTTCACTACCATTCTTACCACCAGGAGCTATCCCCATCTTCGCAGAGTGTTTCAGAAATAT
TCCAAGTATAGTAAGCATGACATGAACAAAGTTCTGGACCTGGAGTTGAAAGGTGACATCTAGAAATGCCTCACAGTTAT
TGTGAAGTGTGCTACAAACCAGCCAATGTTCTTTGCTGAGAAGTTCCATCAGGCCATGAAGGGTGTTGGAACTCGTCATA
AGACACTGATCAGGATTATGGTTTCCTGCTCTGAAATTGACATGAATGACATCAAAGCATGCTATCAGAAGTTGTATGGC
ATCTCTCTCTGTCAAGCCATCCTGGATGAAACCAAAGGAGATTATGAAAAAATCCTGGTGGCTCTCTGTGGAAGAGAC

Alignment

ORF - retro_btau_544 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.53 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAMVSEFLKQAWFIENEEQEYIKTVKGSKGGPGSAVSPYPTFNPSSDVEALHKAITVRGVDEATIIEILT
          MAM.SEFLKQAWFIENEEQEYIKTVKGSKGGPGSAVSPYPT.NPSSDVEALHKAITV.GVDEATIIEILT
Retrocopy MAMGSEFLKQAWFIENEEQEYIKTVKGSKGGPGSAVSPYPTLNPSSDVEALHKAITVKGVDEATIIEILT

Parental  KRNNAQRQQIKAAYLQEKGKPLDEVLKKALLGHLEEVVLALLKTPAQFDAEELRAAMKGLGTDEDTLNEI
          KRNNAQRQQIKAAYLQEKGKPLDEVLKKALLGHLEEVVLALLKTPA.FDAEELRAAMKGLGTDEDTLNEI
Retrocopy KRNNAQRQQIKAAYLQEKGKPLDEVLKKALLGHLEEVVLALLKTPARFDAEELRAAMKGLGTDEDTLNEI

Parental  LASRTNREIREINRVYREELKRDLAKDIASDTSGDYEKALLSLAKGDRSEELAVNDDLADSDARALYEAG
          LASR.NREIREINRVYREELKRDLAKDIASDTSGDYEKALLSLAKGD.SEELAVNDDLADSDARALYEAG
Retrocopy LASRANREIREINRVYREELKRDLAKDIASDTSGDYEKALLSLAKGDQSEELAVNDDLADSDARALYEAG

Parental  ERRKGTDVNVFITILTTRSYPHLRRVFQKYSKYSKHDMNKVLDLELKGDIEKCLTVIVKCATSQPMFFAE
          ERRKGTDVNVF.TILTTRSYPHLRRVFQKYSKYSKHDMNKVLDLELKGDI.KCLTVIVKCAT.QPMFFAE
Retrocopy ERRKGTDVNVFTTILTTRSYPHLRRVFQKYSKYSKHDMNKVLDLELKGDI*KCLTVIVKCATNQPMFFAE

Parental  KLHQAMKGIGTRHKTLIRIMVSRSEIDMNDIKACYQKLYGISLCQAILDETKGDYEKILVALCGRD
          K.HQAMKG.GTRHKTLIRIMVS.SEIDMNDIKACYQKLYGISLCQAILDETKGDYEKILVALCGRD
Retrocopy KFHQAMKGVGTRHKTLIRIMVSCSEIDMNDIKACYQKLYGISLCQAILDETKGDYEKILVALCGRD

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	0.87 RPM	18.60 RPM
ERP005899_muscle	6.33 RPM	39.91 RPM
SRP017611_brain	0.96 RPM	6.49 RPM
SRP017611_kidney	6.58 RPM	32.90 RPM
SRP017611_liver	0.98 RPM	5.36 RPM
SRP030211_testis	0.58 RPM	5.02 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_544 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_544 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_544 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	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,
Echinops telfairi	ENSETEG00000018299	1 retrocopy	retro_etel_573,
Otolemur garnettii	ENSOGAG00000009311	1 retrocopy	retro_ogar_108,
Pteropus vampyrus	ENSPVAG00000006489	2 retrocopies	retro_pvam_536, retro_pvam_713,