RetrogeneDB ID: retro_btau_1349

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: 4:58724267..58724900(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSBTAG00000020620
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: RGS2
• Ensembl ID: ENSBTAG00000034366
• Aliases: None
• Description: regulator of G-protein signaling 2 [Source:RefSeq peptide;Acc:NP_001069064]

Sequence

>retro_btau_1349
ATGCAAAGTGCTCTGTTCCTGGCTGTCCAGCACGAGTGCGGACCCATGGACAAAGGCGCTGGCACCGGCCCCAAGAACGA
GGAGAAGCGAGAGAAGATGAAGCGAACCCTATTAAAAGATTGGAAGAGCCGTTTGAGCTACTTCTTGCAAAATTCCTCCT
CTCCTGGGAAGCCCAAAACTGGCAAGAAAAGCAAACAGCAAACCTTCATCAAGCCTTCTCCTGAGGAAGCCCAGCTGTGG
TCAGAAGCATTTGATGAGCTGCTAGCCAGTAAATATGGTCTTGCTGCATTCAGGGCTTTTTTAAAATCTGAATTCTGTGA
AGAAAATATTGAATTCTGGCTGGCCTGTGAAGACTTCAAAAAAACCAAGTCACCCCAAAAGCTGTCCTCAAAAGCAAAGA
AAATATATACTGACTTCATAGAAAAAGAAGCTCCAAAAGAGATCAACATAGACTTTCAAACCAAAAGTCTGATTGCCCAA
AACATACAGGAGGCTACCAGTGGCTGCTTCACAACTGCCCAGAAAAGGGTGTACAGCTTGATGGAGAACAACTCTTATCC
GCGTTTCTTGGAGTCAGAATTCTACCAGGACTTGTGTAAAAAGCCGCAGATCACCACAGAACCCCATGCCACA

Alignment

ORF - retro_btau_1349 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 99.53 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MQSALFLAVQHECGPMDKGAGTGPKNEEKREKMKRTLLKDWKSRLSYFLQNSSSPGKPKTGKKSKQQTFI
          MQSALFLAVQHECGPMDKGAGTGPKNEEKREKMKRTLLKDWKSRLSYFLQNSSSPGKPKTGKKSKQQTFI
Retrocopy MQSALFLAVQHECGPMDKGAGTGPKNEEKREKMKRTLLKDWKSRLSYFLQNSSSPGKPKTGKKSKQQTFI

Parental  KPSPEEAQLWSEAFDELLASKYGLAAFRAFLKSEFCEENIEFWLACEDFKKTKSPQKLSSKAKKIYTDFI
          KPSPEEAQLWSEAFDELLASKYGLAAFRAFLKSEFCEENIEFWLACEDFKKTKSPQKLSSKAKKIYTDFI
Retrocopy KPSPEEAQLWSEAFDELLASKYGLAAFRAFLKSEFCEENIEFWLACEDFKKTKSPQKLSSKAKKIYTDFI

Parental  EKEAPKEINIDFQTKTLIAQNIQEATSGCFTTAQKRVYSLMENNSYPRFLESEFYQDLCKKPQITTEPHA
          EKEAPKEINIDFQTK.LIAQNIQEATSGCFTTAQKRVYSLMENNSYPRFLESEFYQDLCKKPQITTEPHA
Retrocopy EKEAPKEINIDFQTKSLIAQNIQEATSGCFTTAQKRVYSLMENNSYPRFLESEFYQDLCKKPQITTEPHA

Parental  T
          T
Retrocopy T

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	0.94 RPM	7.07 RPM
ERP005899_muscle	0.84 RPM	7.13 RPM
SRP017611_brain	0.00 RPM	5.30 RPM
SRP017611_kidney	0.00 RPM	3.85 RPM
SRP017611_liver	0.00 RPM	3.40 RPM
SRP030211_testis	0.25 RPM	2.90 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_1349 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_1349 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_1349 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000004305	1 retrocopy	retro_btau_1072,
Bos taurus	ENSBTAG00000034366	1 retrocopy	retro_btau_1349 ,
Cavia porcellus	ENSCPOG00000011598	1 retrocopy	retro_cpor_1121,
Macropus eugenii	ENSMEUG00000007191	1 retrocopy	retro_meug_1498,
Monodelphis domestica	ENSMODG00000012101	1 retrocopy	retro_mdom_690,