RetrogeneDB ID: retro_fcat_527

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B1:59401504..59402080(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSFCAG00000026323
• Aliases: None
• Description: None

Sequence

>retro_fcat_527
GTAACAAAGCAGATATGCACCTCTCAGTTACAGAGATTTTAAAAAAATAGTCATGTAGATTGTTTATGTGCAGAACTTAT
AGTCTGCGGTGGATTCAAGAAAATACAACAGAGTAGAAGAACCCTATCATTGCTTTCCCTCATGCAGGCAGTTCCAAAAG
TGTTACCTAATTGCAGACAAACAGACTTAATGCTGAATTTACTTTGATTCACAAAGAGAGAAAGAAAGCCAATGGGATGG
ATAGGGTGGTTTGGTTTAATGTTAAAAATTGTGTGACTATCCTCATGAATGACAAGCCTGGCACTGTAGCCAATATACCA
CATTTTAGACAGCTACTCTTGGCTAAAACCATGAAAGTTTAAGATATTCTTACTCATGGACTCTTCTCTGACCAGCTATT
TCTAGAACAAATAAAGCTGACTTTGAGGCTGTCATTGTCAAAACTACAGTTCCCGGAGAAGACAAGATGAAACTGTCCTC
CAAATTTTAGGCTGTTGCATTTTAATGATCTTGATGAGACAACCTAGAACACACAAAGGTGAATCTGTGACTTACCTATT
TAGCTGTGTCCCACTG

Alignment

ORF - retro_fcat_527 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.76 %
• Parental protein coverage: 61.01 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  ITMDLHASQIQGF-FDIPVDNLYAEPAV-LQWIRENIAEWKNCIIVSPDAGGAKRVTSI-ADRLNVEFAL
          .T.....SQ.Q.F.....VD.L.AE..V.L.WI.EN..E.KN.II..P.AG..K.VT.....RLN.EF.L
Retrocopy VTKQICTSQLQRF*KNSHVDCLCAELIV<LRWIQENTTE*KNPIIAFPHAGSSKSVT*LQTNRLNAEFTL

Parental  IHKERKKANEVDRMVLVGDVKDRVAILVDDMADTCGTICHAADKLLSAGATKVYAILTHGIFSG-PAISR
          IHKERKKAN..DR.V....VK..V.IL..D...T...I.H....LL.A...KV..ILTHG.FS..PAISR
Retrocopy IHKERKKANGMDRVVWF-NVKNCVTILMNDKPGTVANIPHFR-QLLLAKTMKV*DILTHGLFSD<PAISR

Parental  INNAAFEAVVVTNTIPQEDKMRHCPKIQVID-ISMILAEAIRRTHNGESVSYLFSHVPL
          .N.A.FEAV.V..T.P.EDKM....K......I.MIL.....RTH.GESV.YLFS.VPL
Retrocopy TNKADFEAVIVKTTVPGEDKMKLSSKF*AVA<ILMILMRQ-PRTHKGESVTYLFSCVPL

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	0.11 RPM	12.62 RPM
SRP017611_kidney	0.00 RPM	70.49 RPM
SRP017611_liver	0.00 RPM	11.83 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_527 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_527 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.

---

Parental genes homology:

Parental genes homology involve 16 parental genes, and 23 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000011662	2 retrocopies	retro_cfam_1037, retro_cfam_1433,
Callithrix jacchus	ENSCJAG00000003885	1 retrocopy	retro_cjac_364,
Cavia porcellus	ENSCPOG00000007206	1 retrocopy	retro_cpor_16,
Dipodomys ordii	ENSDORG00000007577	2 retrocopies	retro_dord_223, retro_dord_605,
Echinops telfairi	ENSETEG00000005166	2 retrocopies	retro_etel_1613, retro_etel_669,
Felis catus	ENSFCAG00000012286	1 retrocopy	retro_fcat_394,
Felis catus	ENSFCAG00000026323	1 retrocopy	retro_fcat_527 ,
Monodelphis domestica	ENSMODG00000017334	4 retrocopies	retro_mdom_1323, retro_mdom_1359, retro_mdom_258, retro_mdom_834,
Otolemur garnettii	ENSOGAG00000016087	1 retrocopy	retro_ogar_1440,
Procavia capensis	ENSPCAG00000001197	2 retrocopies	retro_pcap_219, retro_pcap_292,
Pongo abelii	ENSPPYG00000020125	1 retrocopy	retro_pabe_3431,
Pteropus vampyrus	ENSPVAG00000009452	1 retrocopy	retro_pvam_1224,
Sorex araneus	ENSSARG00000007710	1 retrocopy	retro_sara_18,
Ictidomys tridecemlineatus	ENSSTOG00000006056	1 retrocopy	retro_itri_1668,
Tupaia belangeri	ENSTBEG00000009917	1 retrocopy	retro_tbel_1245,
Tursiops truncatus	ENSTTRG00000003226	1 retrocopy	retro_ttru_1494,