RetrogeneDB ID: retro_btau_851

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: 2:5015013..5016042(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSBTAG00000018275
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: RRAGC
• Ensembl ID: ENSBTAG00000009368
• Aliases: None
• Description: ras-related GTP-binding protein C [Source:RefSeq peptide;Acc:NP_001069924]

Sequence

>retro_btau_851
GCTGACAGCTCCAAGCCGAGGATTCTGCTCATGGGCCTCCGGCGCAGCGGCAAGTCCTCCATCCAGAAGGTGGTGTTTCA
TAAAATGTCACCCAATGAGATTCTCTTTTTGGAAAGTACCAACAAGATTTACAAAGATGACATTTCTAATAGCTCCTTTG
TGAATTTCCAAATATGGGATTTTCCTGGGCAAATGGACTTTTTTGACCCAACTTTTGACTACGAGATGATCTTCAGGGGA
ACAGGAGCGTTGATATATGTCATTGATGCACAGGATGACTACATGGAGGCTTTAACAAGACTTCACATTACTGTTTCTAA
AGCCTACAAAGTTAACCCAGACATGAATTTTGAGGTTTTTATTCACAAAGTTGATGGTCTGTCTGATGATCACAAAATAG
AAACACAGAGGGACATTCATCAAAGGGCCAATGATGACCTTGCAGATGCTGGGCTAGAAAAACTCCACCTTAGCTTTTAT
TTGACTAGTATCTATGACCATTCAATATTTGAAGCCTTTAGTAAGGTGGTGCAGAAACTTATCCCACAGCTACCGACCTT
GGAAAACCTATTAAATATCTTTATATCAAATTCAGGCATTGAAAAAGCTTTTCTCTTCAATGTTGTCAGCAAAATCTACA
TTGCAACAGACAGTTCTCCTGTGGATATGCAGTCATATGAACTTTGCTGTGACATGATTGATGTTGTAACTGATGTGTCT
TGTATATATGGGCTAAAGGAAGATGGAAGTGGAAGTGCTTATGACAAAGAGTCCATGGCCATCATCAAGCTGAATAACAC
AGCTGTCCTGTATTTAAAGGAGGTGACTAAATTTTTGGCACTGGTTTGCATCCTTAGGGAAGAAAGTTTTGAAAGAAGAG
GTTTAATAGACTATAATTTCCATTGTTTCCGAAAAGCTATTCATGAGGTTTTTGAGGTGGGTGTGACTTCTCACAGGAGC
TGTAGTCACCAGACCAGTGCCCCCAGCCTGAAAGCGTTGACACACAACGGCACGCCACGAAATGCCATC

Alignment

ORF - retro_btau_851 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.54 %
• Parental protein coverage: 85.96 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ADSSKPRILLMGLRRSGKSSIQKVVFHKMSPNETLFLESTNKIYKDDISNSSFVNFQIWDFPGQMDFFDP
          ADSSKPRILLMGLRRSGKSSIQKVVFHKMSPNE.LFLESTNKIYKDDISNSSFVNFQIWDFPGQMDFFDP
Retrocopy ADSSKPRILLMGLRRSGKSSIQKVVFHKMSPNEILFLESTNKIYKDDISNSSFVNFQIWDFPGQMDFFDP

Parental  TFDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKVNPDMNFEVFIHKVDGLSDDHKIETQRDIH
          TFDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKVNPDMNFEVFIHKVDGLSDDHKIETQRDIH
Retrocopy TFDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKVNPDMNFEVFIHKVDGLSDDHKIETQRDIH

Parental  QRANDDLADAGLEKLHLSFYLTSIYDHSIFEAFSKVVQKLIPQLPTLENLLNIFISNSGIEKAFLFDVVS
          QRANDDLADAGLEKLHLSFYLTSIYDHSIFEAFSKVVQKLIPQLPTLENLLNIFISNSGIEKAFLF.VVS
Retrocopy QRANDDLADAGLEKLHLSFYLTSIYDHSIFEAFSKVVQKLIPQLPTLENLLNIFISNSGIEKAFLFNVVS

Parental  KIYIATDSSPVDMQSYELCCDMIDVVIDVSCIYGLKEDGSGSAYDKESMAIIKLNNTTVLYLKEVTKFLA
          KIYIATDSSPVDMQSYELCCDMIDVV.DVSCIYGLKEDGSGSAYDKESMAIIKLNNT.VLYLKEVTKFLA
Retrocopy KIYIATDSSPVDMQSYELCCDMIDVVTDVSCIYGLKEDGSGSAYDKESMAIIKLNNTAVLYLKEVTKFLA

Parental  LVCILREESFERKGLIDYNFHCFRKAIHEVFEVGVTSHRSCSHQTSAPSLKALTHNGTPRNAI
          LVCILREESFER.GLIDYNFHCFRKAIHEVFEVGVTSHRSCSHQTSAPSLKALTHNGTPRNAI
Retrocopy LVCILREESFERRGLIDYNFHCFRKAIHEVFEVGVTSHRSCSHQTSAPSLKALTHNGTPRNAI

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	10.45 RPM
ERP005899_muscle	0.05 RPM	19.27 RPM
SRP017611_brain	0.14 RPM	19.28 RPM
SRP017611_kidney	0.12 RPM	29.52 RPM
SRP017611_liver	0.00 RPM	6.42 RPM
SRP030211_testis	0.20 RPM	22.26 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_851 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_851 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_851 has 0 orthologous retrocopies within eutheria group .

---

Parental genes homology:

Parental genes homology involve 4 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000009368	2 retrocopies	retro_btau_1023, retro_btau_851 ,
Bos taurus	ENSBTAG00000018438	1 retrocopy	retro_btau_1643,
Microcebus murinus	ENSMICG00000006241	1 retrocopy	retro_mmur_1581,
Monodelphis domestica	ENSMODG00000017710	1 retrocopy	retro_mdom_1967,