RetrogeneDB ID: retro_fcat_157

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: A1:88119598..88120436(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GNAI2
• Ensembl ID: ENSFCAG00000007008
• Aliases: None
• Description: guanine nucleotide binding protein (G protein), alpha inhibiting activity polypeptide 2 [Source:HGNC Symbol;Acc:4385]

Sequence

>retro_fcat_157
CAGTCCCAGGCAGTCCTCTACAGCATCACCATCCAGCCCATCATGGCCACTGTCAAAGCCATGGACTATCTGAAGATAGA
ATTTTCTGGCCCTTCCTGTACACATGACGCCAGGCAGCTGTTTTCACTGTCCTGAACTGCTGAGGGCAGGGGGTGCTTCC
TGAGGGTCTGCCCAGTGTCATCCACAGGCTTAGGTCTGACCCTGGCCTGCAGGTAGGCTCTGGCTGCTGGCTGGAGTGCC
AGCTCCACCGCTCTGCTGCCTTTGACCTCACTGCCCTGGGGAGCATCACACAGAGTAACTACATCCCCACAGAGCAGGAC
GTGCCATGGTCTCAAGAGAAGACCACTGGCATCGTGGAGACACACCTCACCTTCAGGGACTTACCCTCAAGATATTTGAT
GTGGGCAGTCCGCGGTCTGAATCAAAGAAGTGGATCCACTGCCTTGAGAGTGTCACAGCCATCATCTCCTGCATAACCTT
GGGCACGCATGACCTGTGTTAGCAGAGGATGAGGAGATGCACCACATGCACCAGAACATGAAGCTCTTTGACAATAACTT
CTCCAACAACCAGTGGTCACAGACTGGTCCACTATCCTTGTCCTCAACAAGAACTTGTTTGAGCAGATCACCCACACCCC
GATACCACCTGTTTCCCTGAGTACAGAGGGGCCAAGAAATATGACCAGGTAGCCAGCCACATCCAAGGTAAGTCTGAGAC
CCTGCACAAGAGCAAGGATACCAAGGAGACCTACATGCACTTCACCTGTGCCAACCACACCAAGAACTTGTGGTTCCTGT
TTAAAGCTGTCTCCCACATCATCATCAGGAACAACCTG

Alignment

ORF - retro_fcat_157 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.11 %
• Parental protein coverage: 80.11 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  QYRAVVYSNTIQSIMAIVKAMGNLQIDFADPSRADDARQLFALSCTAEE-QGVLPEDLSGVIRRLWADHG
          Q..AV.YS.TIQ.IMA.VKAM..L.I.F..PS...DARQLF.LS.TAE..QGVLPE.L..VI.RL..D.G
Retrocopy QSQAVLYSITIQPIMATVKAMDYLKIEFSGPSCTHDARQLFSLS*TAEG<QGVLPEGLPSVIHRLRSDPG

Parental  VQACFGRSREYQLNDSAAYYLNDLERIAQSDYIPTQQDVLRTRVKTTGIVETHFTFKDLH-FKMFDVGGQ
          .Q...G...E.QL..SAA..L..L..I.QS.YIPT.QDV.....KTTGIVETH.TF.DL...K.FDVG..
Retrocopy LQVGSGCWLECQLHRSAAFDLTALGSITQSNYIPTEQDVPWSQEKTTGIVETHLTFRDLP<LKIFDVGSP

Parental  RSERKKWIHCFEGVTAIIFCVALSAYDL-VLAEDEEMNRMHESMKLFDS-ICNNKW-FTDTSIILFLNKK
          RSE.KKWIHC.E.VTAII.C..L...DL.VLAEDEEM..MH..MKLFD....NN.W..TD.S.IL.LNK.
Retrocopy RSESKKWIHCLESVTAIISCITLGTHDL<VLAEDEEMHHMHQNMKLFDNNFSNNQW<VTDWSTILVLNK-

Parental  DLFEEKITHSPL-TICFPEYTGANKYDEAASYIQSKFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVT
          .LFE..ITH.P..T.CFPEY.GA.KYD..AS.IQ.K.E.L.K.KDTKE.Y.HFTCA..TKN..F.F.AV.
Retrocopy NLFEQ-ITHTPI<TTCFPEYRGAKKYDQVASHIQGKSETLHKSKDTKETYMHFTCANHTKNLWFLFKAVS

Parental  DVIIKNNL
          ..II.NNL
Retrocopy HIIIRNNL

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	105.48 RPM
SRP017611_kidney	0.00 RPM	60.91 RPM
SRP017611_liver	0.00 RPM	49.53 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_157 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_157 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 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Ciona intestinalis	ENSCING00000005305	1 retrocopy	retro_cint_14,
Callithrix jacchus	ENSCJAG00000004925	1 retrocopy	retro_cjac_1091,
Ciona savignyi	ENSCSAVG00000001800	1 retrocopy	retro_csav_19,
Felis catus	ENSFCAG00000007008	1 retrocopy	retro_fcat_157 ,
Otolemur garnettii	ENSOGAG00000012525	1 retrocopy	retro_ogar_1470,
Rattus norvegicus	ENSRNOG00000016592	1 retrocopy	retro_rnor_505,