RetrogeneDB ID: retro_fcat_110

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: C2:11175196..11177353(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSFCAG00000023033
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: SLC5A2
• Ensembl ID: ENSFCAG00000001380
• Aliases: None
• Description: solute carrier family 5 (sodium/glucose cotransporter), member 2 [Source:HGNC Symbol;Acc:11037]

Sequence

>retro_fcat_110
ATGAGGGCTGTACTGGAGACAGCAGACATTGCCATAGTGGCCCTGTATTTTATCCTGGTCATGTGCATTGGTTTTTTTGC
CATGTGGAAATCTAATAGAAGCACCGTGAGTGGATACTTCCTGGCGGGGCGCTCTATGACCTGGGTAGCAATTGGTGCCT
CTCTGTTTGTGAGCAATATTGGGAGTGAGCACTTCATTGGGCTGGCAGGATCTGGAGCTGCAAGTGGATTTGCAGTGGGC
GCATGGGAATTCAATGCCTTACTGCTTTTGCAACTTCTGGGATGGGTTTTCATCCCGATTTACATCCGGTCAGGGGTATA
CACCATGCCTGAATACTTGTCCAAGCGATTTGGTGGCCATAGGATTCAGGTCTATTTCGCAGCCTTGTCTCTGATTCTTT
ATATCTTCACCAAGCTCTCAGTGGATCTGTATTCGGGTGCCCTCTTTATCCAGGAGTCTTTGGGTTGGAACCTCTATGTG
TCTGTCATCCTGCTCATTGGCATGACTGCTTTGCTGACTGTCACCGGAGGCCTTGTTGCAGTGATCTACACAGACACTCT
ACAGGCTCTGCTTATGATCGTTGGGGCACTCACACTTATGATTATTAGCATGATGGAGATTGGCGGGTTTGAGGAAGTTA
AGAGAAGGTACATGTTGGCCTCGCCCAATGTTACTTCCATCTTGTTGACATACAACCTTTCCAACACAAATTCTTGTAAT
GTCCACCCTAAGAAAGATGCGCTGAAAATGTTACGGAATCCGACAGATGAAGATGTTCCTTGGCCTGGATTCGTTCTTGG
GCAGACCCCAGCTTCAGTATGGTACTGGTGTGCTGACCAAGTCATCGTGCAGAGAGTCTTAGCAGCTAAAAACATTGCTC
ATGCCAAAGGCTCTACTCTTATGGCTGGCTTTTTGAAGCTTCTGCCAATGTTTATCATAGTTGTCCCAGGAATGATTTCC
AGGATACTGTTTGCCGATGATATAGCTTGCATCAACCCAGAGCACTGCATGCAAGTATGTGGAAGCAGAGCTGGGTGCTC
TAATATTGCTTACCCACGCCTGGTGATGAAGCTGGTTCCTGTGGGCCTCCGGGGCTTAATGATGGCAGTGATGATTGCGG
CTTTGATGAGCGACTTGGACTCTATCTTTAACAGTGCCAGTACCATATTCACCCTCGATGTGTATAAACTCATCCGCAGG
AGCGCAAGCTCCCGAGAACTAATGATTGTGGGGAGGATATTTGTGGCTTTTATGGTGGTGATCAGCATTGCATGGGTGCC
AATCATCGTGGAGATGCAAGGAGGCCAGATGTACCTTTACATTCAGGAGGTAGCAGATTACCTGACACCCCCAGTTGCGG
CCCTATTCCTTCTGGCAATTTTCTGGAAGCGCTGCAATGAACAAGGGGCTTTCTATGGTGGAATGGCTGGCTTTGTTCTT
GGAGCAGTCCGTTTGACACTGGCCTTTGCGTACCGTGCCCCAGAATGTGACCAACCTGATAACAGGCCAGGCTTCATCAA
AGACATCCATTACATGTATGTGGCCACAGCATTGTTTTGGGTCACAGGACTTATTACTGTCATTGTTAGCCTTCTCACAC
CACCTCCCACAAAGGAACAGATTCGTACCACCACCTTTTGGTCTAAGAAGAGCTTGGTGGTGAAGGAGAGCTGCTCCCCG
AAAGAGGAACCATACAAAATGCAAGAGAAGAGCATTCTGAGATGCAATGAGAATAGTGAGGCCATCAACCACATCATTCC
CAATGGGAAATCTGAAGATAGCATCAAGGGCCTTCAGCCTGAAGATGTTAATCTTTTGGTGACCTGCAGAGAAGAAGGCA
ATCCAGTGGCTTCATTAGGTCATTCAGAGGCAGAAACACCAGTAGATGCTTATTCCAATGGGCAAGCAGCTCTCATGGGT
GAGAAAGAGAGAAAGAAAGAAACAGAGGATGGAGGCCGGTACTGGAAGTTCATAGATTGGTTCTGTGGCTTTAAAAGTAA
GAGCCTCAGCAAGAGGAGTCTCAGAGACCTGATGGAGGAGGAGGCTGTTTGTTTACAAATGTTGGAAGAGCCTCCACAAG
TTAAACTAATACTAAATATTGGACTTTTTGCTGTGTGTTCACTTGGAATTTTCATGTTTGTTTATTTTTCCTTATGA

Alignment

ORF - retro_fcat_110 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.53 %
• Parental protein coverage: 81.35 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ADILVIAAYFLLVIGVGLWSMCRTNRGTVGGYFLAGRSMVWWPVGASLFASNIGSGHFVGLAGTGAASGL
          ADI...A.YF.LV...G...M...NR.TV.GYFLAGRSM.W...GASLF.SNIGS.HF.GLAG.GAASG.
Retrocopy ADIAIVALYFILVMCIGFFAMWKSNRSTVSGYFLAGRSMTWVAIGASLFVSNIGSEHFIGLAGSGAASGF

Parental  AVAGFEWNALFVVLLLGWLFAPVYLTAGVITMPQYLRKRFGGHRIRLYLSVLSLFLYIFTKISVDMFSGA
          AV...E.NAL....LLGW.F.P.Y...GV.TMP.YL.KRFGGHRI..Y...LSL.LYIFTK.SVD..SGA
Retrocopy AVGAWEFNALLLLQLLGWVFIPIYIRSGVYTMPEYLSKRFGGHRIQVYFAALSLILYIFTKLSVDLYSGA

Parental  VFIQQALGWNIYASVIALLGITMIYTVTGGLAALMYTDTLQTFVILGGAFVLMGYAFHEVGGYSGLFDKY
          .FIQ..LGWN.Y.SVI.L.G.T...TVTGGL.A..YTDTLQ......GA..LM.....E.GG.......Y
Retrocopy LFIQESLGWNLYVSVILLIGMTALLTVTGGLVAVIYTDTLQALLMIVGALTLMIISMMEIGGFEEVKRRY

Parental  LGAMTSL-TVSEDPAVGNISSSCYRPRPDSYHLLRDAVTGDLPWPALLLGLTIVSGWYWCSDQVIVQRCL
          ..A..............N..S....P..D....LR.....D.PWP...LG.T..S.WYWC.DQVIVQR.L
Retrocopy MLASPNVTSILLTYNLSNTNSCNVHPKKDALKMLRNPTDEDVPWPGFVLGQTPASVWYWCADQVIVQRVL

Parental  AGKNLTHIKAGCILCGYLKLMPMFLMVMPGMISRILYPDEVACVVPEVCKRVCGTEVGCSNIAYPRLVVK
          A.KN..H.K......G.LKL.PMF..V.PGMISRIL..D..AC..PE.C..VCG...GCSNIAYPRLV.K
Retrocopy AAKNIAHAKGSTLMAGFLKLLPMFIIVVPGMISRILFADDIACINPEHCMQVCGSRAGCSNIAYPRLVMK

Parental  LMPNGLRGLMLAVMLAALMSSLASIFNSSSTLFTMDIYMRLRPHAGDRELLLVGRLWVVFIVAVSVAWLP
          L.P.GLRGLM.AVM.AALMS.L.SIFNS.ST.FT.D.Y...R..A..REL..VGR..V.F.V..S.AW.P
Retrocopy LVPVGLRGLMMAVMIAALMSDLDSIFNSASTIFTLDVYKLIRRSASSRELMIVGRIFVAFMVVISIAWVP

Parental  VVQAAQGGQLFDYIQAVSSYLAPPVSAVFVLALFVPRVNEKGAFWGLIGGLFMGLARLIPEFSFGSGSCV
          .....QGGQ...YIQ.V..YL.PPV.A.F.LA.F..R.NE.GAF.G...G...G..RL...F......C.
Retrocopy IIVEMQGGQMYLYIQEVADYLTPPVAALFLLAIFWKRCNEQGAFYGGMAGFVLGAVRLTLAFAYRAPECD

Parental  RPSTCPALFCRVHYLYFAIVLFVCSGLLILVVSLCTAPIPRKHLHRLVFSLRHSKEQREDLDADE
          .P...P......HY.Y.A..LF...GL....VSL.T.P..........F....S....E.....E
Retrocopy QPDNRPGFIKDIHYMYVATALFWVTGLITVIVSLLTPPPTKEQIRTTTFWSKKSLVVKESCSPKE

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	21.00 RPM	0.23 RPM
SRP017611_kidney	5.36 RPM	418.93 RPM
SRP017611_liver	2.33 RPM	0.30 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_110 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_110 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 11 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000011926	1 retrocopy	retro_acar_109,
Ailuropoda melanoleuca	ENSAMEG00000016218	1 retrocopy	retro_amel_32,
Bos taurus	ENSBTAG00000010096	1 retrocopy	retro_btau_287,
Canis familiaris	ENSCAFG00000016909	1 retrocopy	retro_cfam_157,
Felis catus	ENSFCAG00000001380	1 retrocopy	retro_fcat_110 ,
Latimeria chalumnae	ENSLACG00000007334	1 retrocopy	retro_lcha_35,
Loxodonta africana	ENSLAFG00000005737	1 retrocopy	retro_lafr_54,
Myotis lucifugus	ENSMLUG00000011500	1 retrocopy	retro_mluc_218,
Mus musculus	ENSMUSG00000030781	1 retrocopy	retro_mmus_200,
Pteropus vampyrus	ENSPVAG00000012531	1 retrocopy	retro_pvam_13,
Tursiops truncatus	ENSTTRG00000012500	1 retrocopy	retro_ttru_2,