RetrogeneDB ID: retro_cpor_791

Retrocopy location

• Organism: Guinea Pig (Cavia porcellus)
• Coordinates: scaffold_28:4907730..4908666(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSCPOG00000025321
• Aliases: None
• Description: Taste receptor type 2 [Source:UniProtKB/TrEMBL;Acc:H0W6H8]

Sequence

>retro_cpor_791
ATGGTTGGTGTTTTGAAATTCATCTTTACAATAGTTTTAGCTGTTGAATTCATAATTGGAATTGTAGGAAATGTCTTCAT
AGCACTGGTGAACTACATGGACTGGATCAAGAGAAGAAATATCTCTTTGGTTGATCAAATCCTCACTTCTTTGGTGATCT
CCAGAATTGGTCTTCTCTGCTCAGTACAGACACATGCAACATTATTTATGATATATCCAGGGTTGGTGGAGACGGAAAAA
GTGTTCAGAATGATTGCTTTTGCCTGGGTTGTTACCGATCATTTTAGCATCTGGTTTGCTATGTGCCTCACCCTCTTTTA
TTTTCTCAAGATAGCCAATTTTGCTAACTCTATTTTTCTTTATCTAAAGTGGAGAGTTAAAAAAGTGGTTTTAATGAATT
TCCTGATGTCTCTTTTTTTCTTACTGTTCAATATCATAGCCATTCATATACAAATGAATGTCTGGAATGATGAATCTAAA
AGAAATGTATCTTATAGTTTTAATTTGAAGAATTTTAAACAATTTCCTGGAGCTCTTTTATCCATCAGCTCTATGTTCAT
GCTGATACCCTTCACCATGTCTTTAATAGCTTGTCTTCTGCTCATCTTCTCCCTGTGGAAACATCTGAAGAGGGTGCAGC
ACAATGTTAAGGGATCCAGAAATCCCAGAACTACGGCCCACATAAAAGCCATGCAAACTGTGATCAGCTTCCTCCTACTT
TATGCCGTCTACTTATTCTGTCTTATCATGCAGATCTCAGGCTTTAAATTTCTGGAGAAAGACCATATCATTTTTTTCAA
ACACGCTGTTGGAATCGCTGTTCCTTCAGGACACTCACTTGTTTTGATTCTGGGAAACAGGAAACTGAGACAAGCTTTTT
TTTCAGTGGTGTGGTGGCTGAGGTCCAGACCCAAAGGTATGCAATCTTTAGGTTTG

Alignment

ORF - retro_cpor_791 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.93 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAGVMPSIFRLVFSVEFTIGNLGNVFIILVNCMDLINRRKISLADQLLTALAISRIVLLWILFTSWWLHL
          M.GV...IF..V..VEF.IG..GNVFI.LVN.MD.I.RR.ISL.DQ.LT.L.ISRI.LL....T...L..
Retrocopy MVGVLKFIFTIVLAVEFIIGIVGNVFIALVNYMDWIKRRNISLVDQILTSLVISRIGLLCSVQTHATLFM

Parental  FSPGFYMNFVRLRLSYAIWSMTFHFNAWLATCLSIFYCLKIANFSNSMFLYFKWRVKKVVLVTLLASTFL
          ..PG........R.....W..T.HF..W.A.CL..FY.LKIANF.NS.FLY.KWRVKKVVL...L.S.F.
Retrocopy IYPGLVETEKVFRMIAFAWVVTDHFSIWFAMCLTLFYFLKIANFANSIFLYLKWRVKKVVLMNFLMSLFF

Parental  VIFDKYIIAIHIEMNVWHDESKRNVSYSFNLKNFKQFPGALLSISSMFMLIPFTMSLIACLLLIFSLWKH
          ..F...IIAIHI.MNVW.DESKRNVSYSFNLKNFKQFPGALLSISSMFMLIPFTMSLIACLLLIFSLWKH
Retrocopy LLFN--IIAIHIQMNVWNDESKRNVSYSFNLKNFKQFPGALLSISSMFMLIPFTMSLIACLLLIFSLWKH

Parental  LKKMQHNAKGSRNASTTAHRKAMQTVISFLLLYAIYLFCLIMQITSFKFLEKDHIIFFEHAVGIAVPSGH
          LK..QHN.KGSRN..TTAH.KAMQTVISFLLLYA.YLFCLIMQI..FKFLEKDHIIFF.HAVGIAVPSGH
Retrocopy LKRVQHNVKGSRNPRTTAHIKAMQTVISFLLLYAVYLFCLIMQISGFKFLEKDHIIFFKHAVGIAVPSGH

Parental  SLVLILGNRKLRQAFFSVVWWLRSRPKGMQSLGL
          SLVLILGNRKLRQ....VVWWLRSRPKGMQSLGL
Retrocopy SLVLILGNRKLRQXXXXVVWWLRSRPKGMQSLGL

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
SRP017611_brain	0.00 RPM	0.00 RPM
SRP017611_kidney	0.00 RPM	0.00 RPM
SRP017611_liver	0.00 RPM	0.00 RPM
SRP040447_lung	0.00 RPM	0.00 RPM
SRP040447_skeletal_muscle	0.00 RPM	0.00 RPM

ChIP-Seq

Cavia porcellus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_cpor_791 retrocopy.

TSS

Cavia porcellus was not studied using FANTOM5 data.

Lab

retro_cpor_791 was not experimentally validated.

Homology

Retrocopy orthology:

Cavia porcellus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000025321	2 retrocopies	retro_cpor_108, retro_cpor_791 ,