RetrogeneDB ID: retro_fcat_822

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B3:31458749..31459079(+)
• Located in intron of: ENSFCAG00000002872

Retrocopy information

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

Parental gene information

• Parental gene symbol: BSG
• Ensembl ID: ENSFCAG00000007837
• Aliases: None
• Description: basigin (Ok blood group) [Source:HGNC Symbol;Acc:1116]

Sequence

>retro_fcat_822
GTCCTTGGAGAACAAGATTGCGGGGAGCTGCACACCTGGAACCTGAATCTGGAGGAAGACCATGCCAAGTATGCCTGCAA
TGGCACCAATTTGGAAGGCATCAGCAGCCAGGCCATCGTCATGCTTCATGTGTGAAACTGCTTTGCTGCCCTCTGGCCCT
TCGTGGGCAGTATAGCCGAGGTACTAGTGCTGGTCACTGCTATGTTCATCTATGAGAAGTGGCGGAGGCTGGACGAGATC
CTGGATAACAAGGACACAGGCTCCGCTTCTCTGAAGAGCAGCAGGCACGTGAACAACAAAAGTGAGAACATTCGCCAGTG
GAACAGCAAC

Alignment

ORF - retro_fcat_822 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 60.91 %
• Parental protein coverage: 51.66 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VVSSETKTELHILSLDLETDPGRYACNGTNSEG-TSQAVVTLRVRNRFAALWPFLGIVAEVLVLVTVIFI
          V.......ELH...L.LE.D...YACNGTN.EG..SQA.V.L.V.N.FAALWPF.G..AEVLVLVT..FI
Retrocopy VLGEQDCGELHTWNLNLEEDHAKYACNGTNLEGISSQAIVMLHV*NCFAALWPFVGSIAEVLVLVTAMFI

Parental  YEKRRKPDEVLDDEDTGSAPLKSSGHINDKGKNVRQRNAN
          YEK.R..DE.LD..DTGSA.LKSS.H.N.K..N.RQ.N.N
Retrocopy YEKWRRLDEILDNKDTGSASLKSSRHVNNKSENIRQWNSN

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	45.11 RPM
SRP017611_kidney	0.21 RPM	197.36 RPM
SRP017611_liver	0.10 RPM	34.77 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_822 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_822 was not experimentally validated.

Homology

Retrocopy orthology:

Felis catus 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 5 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000019717	1 retrocopy	retro_cfam_1426,
Felis catus	ENSFCAG00000007837	1 retrocopy	retro_fcat_822 ,
Myotis lucifugus	ENSMLUG00000009184	1 retrocopy	retro_mluc_399,
Monodelphis domestica	ENSMODG00000006517	2 retrocopies	retro_mdom_1195, retro_mdom_1203,
Mustela putorius furo	ENSMPUG00000009950	1 retrocopy	retro_mputfur_878,