RetrogeneDB ID: retro_fcat_62

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: F1:7563443..7564772(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSFCAG00000013340
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: BECN1
• Ensembl ID: ENSFCAG00000013136
• Aliases: None
• Description: beclin 1, autophagy related [Source:HGNC Symbol;Acc:1034]

Sequence

>retro_fcat_62
CTTAGAGTCAAAGTAAGAGCCTCCACCATGTTCCCCATCCGCTTCATTTGCCAGTGCTGCAAGCAGCCGCTAAAGCTGAA
TCAGTCCATGGAGACCTCAGGTCTTGAGACCACCCAAGAACCTACAGCTTCCACACTCTCAGCTCAGTGGGAGCCAGGAG
AAACCCTGGAAAGAGGCCCTGCCTCCAAGGCAGAGACAGATACTGAGAAGCTACAGGATAGTACCTCCTGCTCCACCCTC
CCTGGAGATGATGGCAAGATGTCCAGGGACAGTTCTAGCAACTTCATCTTACTTGGAGAGTTTGCCCCTACAAGTATGCT
CAGTAACGCCCAGAAGACTGCTGGGGACATTTTTGACATCCTGACTGGTGAAAGAGATGTGGACCACGCCCTGTGTGAGG
ACTGTACTGACAAACTTTTAGAGGAGCTGGACACCCAACTCATTCTCACAGAAACAGAGAACCAGAACTACAAACATTGG
AGGAAGAGAATACATGACGGGGAGCTGGAGACACTGCAGGAGGAGCTGGAGGGCCTGGAGCTGGAGGAAGCAAGGCTGGC
TCAAGAGCTGGAGGAGGTGGAGAAGAACCAAAAAAGAGTAGCAGAGGATCTTGAGGCAGCCCGAGCAGAGACTCAAGTGC
TGGACCAGCAGGATGAGCAGCACTGGAGGGACTACAGTAACTTACAATGGCAGCAACTGGAACTGCAGGATGAGCTGACC
AGCAGGAGGAACCAGCTGGTACGTGCCCAGATCCAGTGGGACTGGCTGAAGAAGACCAATGTCTTCAGTGCCACCTTTGA
GATCAGGGATGATGGCCCTGTGGGCATCATCAATAGCTTCAGATTGGGCTGCCTCCCCACTGTCCCCGTGAGCTGGAATG
AGATCAACATGGCCTGGGGACAGACAGCCTTGCTACTTCATGCCCTGTCCAACAAGATTGGGCTGGAGTTTCAGAGGTAT
CAACTCTTCCCCTGTGGAAACCGGTCCTATCTGAAGTCTTTAACAGATGACGCCATTGAGCTGCCATTGTTCTGCATCAC
AGGGCAGATTACTTGCTTGGATGTCAAATTTGACCTCGCAATGATGGCTTTTTTGGACTGCATGCAGCAGTTCCAGGAAG
AGGCTGAGAAAGGCAAGTGGGGTCTCTGCCTGCCCTGCAAGATTCATGTGGAAAATGGCCTGATGGAAGACTCTGGAAGC
ACTGGTGAGTTCTATTCCATCAGAACCTGCCTGAACACGGAGGAGCAGTGGACAAAGGCACTCAAGCTCGTGCTTATAAA
TTTTAAGTGTAGTCTTGCTTGGCTGTCTTTAAAATATTGTCAAAAATAA

Alignment

ORF - retro_fcat_62 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 53.14 %
• Parental protein coverage: 99.11 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KTSSSTM-QVSFVCQRCSQPLKLDTSFKILDRVTIQELTAPLLATAQVKPGETQEEEANSGEEPFIETRQ
          K...STM....F.CQ.C.QPLKL..S.......T.QE.TA..L..AQ..PGET.E....S..E...E..Q
Retrocopy KVRASTMFPIRFICQCCKQPLKLNQSMETSGLETTQEPTASTLS-AQWEPGETLERGPASKAETDTEKLQ

Parental  DGVSRRFIP-PARMMSTESANSFTLIGEASDGGTMENLSRRLKVTGDLFDIMSGQTDVDHPLCEECTDTL
          D..S....P.....MS..S...F.L.GE........N.....K..GD.FDI..G..DVDH.LCE.CTD.L
Retrocopy DSTSCSTLPGDDGKMSRDSSSNFILLGEFAPTSMLSNAQ---KTAGDIFDILTGERDVDHALCEDCTDKL

Parental  LDQLDTQLNVTENECQNYKRCLEILEQMNEDDSGQLQMELKELALEEERLIQELEDVEKNRKIVAENLEK
          L..LDTQL..TE.E.QNYK................LQ.EL..L.LEE.RL.QELE.VEKN.K.VAE.LE.
Retrocopy LEELDTQLILTETENQNYKHWRK---RIHDGELETLQEELEGLELEEARLAQELEEVEKNQKRVAEDLEA

Parental  VQAEAERLDQEEAQYQREYSEFKRQQLELDDELKSVENQMRYAQMQLDKLKKTNVFNATFHIWHSGQFGT
          ..AE...LDQ...Q..R.YS....QQLEL.DEL.S..NQ...AQ.Q.D.LKKTNVF.ATF.I...G..G.
Retrocopy ARAETQVLDQQDEQHWRDYSNLQWQQLELQDELTSRRNQLVRAQIQWDWLKKTNVFSATFEIRDDGPVGI

Parental  INNFRLGRLPSVPVEWNEINAAWGQTVLLLHALANKMGLKFQRYRLVPYGNHSYLESLTDKSKELPLYCS
          IN.FRLG.LP.VPV.WNEIN.AWGQT.LLLHAL.NK.GL.FQRY.L.P.GN.SYL.SLTD...ELPL.C.
Retrocopy INSFRLGCLPTVPVSWNEINMAWGQTALLLHALSNKIGLEFQRYQLFPCGNRSYLKSLTDDAIELPLFCI

Parental  GGLRFFWDNKFDHAMVAFLDCVQQFKEEVEKGETRFCLPYRMDVEKGKIEDTGGSGGSYSIKTQFNSEEQ
          .G.....D.KFD.AM.AFLDC.QQF.EE.EKG....CLP....VE.G..ED.G..G..YSI.T..N.EEQ
Retrocopy TGQITCLDVKFDLAMMAFLDCMQQFQEEAEKGKWGLCLPCKIHVENGLMEDSGSTGEFYSIRTCLNTEEQ

Parental  WTKALKFMLTNLKWGLAWVSSQFYNK
          WTKALK..L.N.K..LAW.S.....K
Retrocopy WTKALKLVLINFKCSLAWLSLKYCQK

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	91.59 RPM
SRP017611_kidney	0.00 RPM	79.05 RPM
SRP017611_liver	0.00 RPM	25.27 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_62 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_62 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 18 parental genes, and 20 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000006867	1 retrocopy	retro_amel_16,
Bos taurus	ENSBTAG00000019914	1 retrocopy	retro_btau_226,
Callithrix jacchus	ENSCJAG00000013144	1 retrocopy	retro_cjac_330,
Dipodomys ordii	ENSDORG00000000956	1 retrocopy	retro_dord_675,
Felis catus	ENSFCAG00000013136	1 retrocopy	retro_fcat_62 ,
Homo sapiens	ENSG00000126581	1 retrocopy	retro_hsap_335,
Macropus eugenii	ENSMEUG00000011700	1 retrocopy	retro_meug_600,
Macaca mulatta	ENSMMUG00000029971	1 retrocopy	retro_mmul_81,
Monodelphis domestica	ENSMODG00000015064	1 retrocopy	retro_mdom_1778,
Mus musculus	ENSMUSG00000035086	1 retrocopy	retro_mmus_390,
Nomascus leucogenys	ENSNLEG00000011840	1 retrocopy	retro_nleu_1776,
Oryctolagus cuniculus	ENSOCUG00000015964	3 retrocopies	retro_ocun_1021, retro_ocun_1732, retro_ocun_218,
Procavia capensis	ENSPCAG00000014049	1 retrocopy	retro_pcap_345,
Pan troglodytes	ENSPTRG00000022819	1 retrocopy	retro_ptro_268,
Sorex araneus	ENSSARG00000000367	1 retrocopy	retro_sara_136,
Sus scrofa	ENSSSCG00000017386	1 retrocopy	retro_sscr_75,
Ictidomys tridecemlineatus	ENSSTOG00000012612	1 retrocopy	retro_itri_25,
Tursiops truncatus	ENSTTRG00000011716	1 retrocopy	retro_ttru_595,