RetrogeneDB ID: retro_btau_240

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: 5:25306666..25307191(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSBTAG00000010711
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: MEA1
• Ensembl ID: ENSBTAG00000005536
• Aliases: MEA1, MEA
• Description: Male-enhanced antigen 1 [Source:UniProtKB/Swiss-Prot;Acc:Q29407]

Sequence

>retro_btau_240
ATGGCAACAGTAGTTCTAGGGGGTGACACCATGGGTCCTGAACGTATCTTCCCCAATCAGACTGAGGAACTGGGGCCACA
TCAGGGCCCCACGGAAGGCACTGGGGATTGGAGCAGTGAGGAACCAGAGGAAGAACAAGAGGAAACAGGGGCAGGACCAG
CTGGCTACTCCTACCAGCCTCTGAACCAAGATCCTGAACAAGAGGAGGTGGAACTGGCACCAGTGGGGGATGGAGAAGAT
GTAGTTGCTGATATCAAGGATCGGATCCAGGCCCTGGGGCTTCATTTGCCGGACCCACCACTAGAAAGTGAGGACGAAGA
TGAGCAGGGAGCTACAGCATTGAACCACCACAGCTCTATTCCCATGGACCCAGAACATGTAGAGCTGGTGAAAAGGACAA
TGGCTGGTATAAGCCTGCCTGCACCAGGGGTTCCTGCCTGGGCTCGAGAGATATCAGATGCCCAGTGGGAAGATGTGGTA
CAGAAGGCCCTCCAAGCCTGGCAGGCCGCCCCTGCCTGGAAGTGA

Alignment

ORF - retro_btau_240 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.13 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MATVVLGGDTMGPERIFPNQTEELGPHQGPTEGTGDWSSEEPEEEQEETGAGPAGYSYQPLNQDPEQEEV
          MATVVLGGDTMGPERIFPNQTEELGPHQGPTEGTGDWSSEEPEEEQEETGAGPAGYSYQPLNQDPEQEEV
Retrocopy MATVVLGGDTMGPERIFPNQTEELGPHQGPTEGTGDWSSEEPEEEQEETGAGPAGYSYQPLNQDPEQEEV

Parental  ELAPVGDGEDVVADIQDRIQALGLHLPDPPVESEDEDEQGATALNNHSSIPMDPEHVELVKRTMAGISLP
          ELAPVGDGEDVVADI.DRIQALGLHLPDPP.ESEDEDEQGATALN.HSSIPMDPEHVELVKRTMAGISLP
Retrocopy ELAPVGDGEDVVADIKDRIQALGLHLPDPPLESEDEDEQGATALNHHSSIPMDPEHVELVKRTMAGISLP

Parental  APGVPAWARELSDAQWEDVVQKALQARQAAPAWK
          APGVPAWARE.SDAQWEDVVQKALQA.QAAPAWK
Retrocopy APGVPAWAREISDAQWEDVVQKALQAWQAAPAWK

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	13.77 RPM
ERP005899_muscle	0.00 RPM	38.75 RPM
SRP017611_brain	0.09 RPM	28.32 RPM
SRP017611_kidney	0.00 RPM	29.28 RPM
SRP017611_liver	0.00 RPM	22.73 RPM
SRP030211_testis	3.24 RPM	556.35 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_240 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_240 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_240 has 0 orthologous retrocopies within eutheria group .

---

Parental genes homology:

Parental genes homology involve 16 parental genes, and 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000012655	1 retrocopy	retro_amel_1620,
Bos taurus	ENSBTAG00000005536	1 retrocopy	retro_btau_240 ,
Canis familiaris	ENSCAFG00000001756	1 retrocopy	retro_cfam_1643,
Callithrix jacchus	ENSCJAG00000004894	2 retrocopies	retro_cjac_2054, retro_cjac_824,
Cavia porcellus	ENSCPOG00000022111	1 retrocopy	retro_cpor_1530,
Echinops telfairi	ENSETEG00000002439	1 retrocopy	retro_etel_236,
Felis catus	ENSFCAG00000031337	1 retrocopy	retro_fcat_1772,
Loxodonta africana	ENSLAFG00000013881	1 retrocopy	retro_lafr_60,
Myotis lucifugus	ENSMLUG00000012138	2 retrocopies	retro_mluc_1819, retro_mluc_851,
Monodelphis domestica	ENSMODG00000019002	1 retrocopy	retro_mdom_878,
Oryctolagus cuniculus	ENSOCUG00000001565	2 retrocopies	retro_ocun_1312, retro_ocun_1446,
Pelodiscus sinensis	ENSPSIG00000002330	1 retrocopy	retro_psin_56,
Pteropus vampyrus	ENSPVAG00000008711	1 retrocopy	retro_pvam_266,
Rattus norvegicus	ENSRNOG00000017144	2 retrocopies	retro_rnor_716, retro_rnor_961,
Tupaia belangeri	ENSTBEG00000012294	2 retrocopies	retro_tbel_1462, retro_tbel_3528,
Tursiops truncatus	ENSTTRG00000006996	1 retrocopy	retro_ttru_357,