RetrogeneDB ID: retro_btau_35

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: 15:42332730..42333027(-)
• Located in intron of: ENSBTAG00000046636

Retrocopy information

• Ensembl ID: ENSBTAG00000027716
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: C7H19orf53
• Ensembl ID: ENSBTAG00000002525
• Aliases: C7H19orf53, C19orf53
• Description: Leydig cell tumor 10 kDa protein homolog [Source:UniProtKB/Swiss-Prot;Acc:Q148I0]

Sequence

>retro_btau_35
ATGGCGCAGGGGCAGCGCAAGTTCCAGGCGCAGAAGCCAGCGAAGAGCAAGGCGGCGGCGGCGGCGGCCTCGGCGCGGAA
CCGGGGCCCGAGGAAGGGCGGTCGCGTTATCGCACCCAAGAAGGCACGCATCGTGCAGCAGCAGCAGCTCAAGAAGAACC
TGGAGGTTGGGATCCGGAAGAAGATTGAGCATGATGTGGTGATGAAAGCCAGCACCAGCCTGCCCAAAAAGCTGGCGCTT
TTGAAGGCCAGCACCAAGAAGAAGGAGGCCTCCTCCTCCACCAAGATGCCTGCCTAA

Alignment

ORF - retro_btau_35 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 100.0 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAQGQRKFQAQKPAKSKAAAAAASARNRGPRKGGRVIAPKKARIVQQQQLKKNLEVGIRKKIEHDVVMKA
          MAQGQRKFQAQKPAKSKAAAAAASARNRGPRKGGRVIAPKKARIVQQQQLKKNLEVGIRKKIEHDVVMKA
Retrocopy MAQGQRKFQAQKPAKSKAAAAAASARNRGPRKGGRVIAPKKARIVQQQQLKKNLEVGIRKKIEHDVVMKA

Parental  STSLPKKLALLKASTKKKEASSSTKMPA
          STSLPKKLALLKASTKKKEASSSTKMPA
Retrocopy STSLPKKLALLKASTKKKEASSSTKMPA

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	0.07 RPM	6.92 RPM
ERP005899_muscle	0.16 RPM	40.12 RPM
SRP017611_brain	0.00 RPM	19.19 RPM
SRP017611_kidney	0.06 RPM	21.34 RPM
SRP017611_liver	0.00 RPM	8.99 RPM
SRP030211_testis	0.08 RPM	4.82 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_35 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_35 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_35 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 11 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000002525	1 retrocopy	retro_btau_35 ,
Callithrix jacchus	ENSCJAG00000004427	3 retrocopies	retro_cjac_1003, retro_cjac_2634, retro_cjac_291,
Homo sapiens	ENSG00000104979	1 retrocopy	retro_hsap_628,
Gorilla gorilla	ENSGGOG00000027024	1 retrocopy	retro_ggor_550,
Monodelphis domestica	ENSMODG00000011876	2 retrocopies	retro_mdom_1436, retro_mdom_926,
Nomascus leucogenys	ENSNLEG00000013141	1 retrocopy	retro_nleu_452,
Otolemur garnettii	ENSOGAG00000007185	1 retrocopy	retro_ogar_640,
Procavia capensis	ENSPCAG00000014250	1 retrocopy	retro_pcap_26,
Pan troglodytes	ENSPTRG00000010565	1 retrocopy	retro_ptro_457,
Pteropus vampyrus	ENSPVAG00000006321	1 retrocopy	retro_pvam_1140,
Tursiops truncatus	ENSTTRG00000010354	1 retrocopy	retro_ttru_317,