RetrogeneDB ID: retro_mputfur_435

Retrocopy location

• Organism: Ferret (Mustela putorius furo)
• Coordinates: GL896909.1:11950031..11950449(-)
• Located in intron of: ENSMPUG00000000469

Retrocopy information

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

Parental gene information

• Parental gene symbol: CLNS1A
• Ensembl ID: ENSMPUG00000015944
• Aliases: None
• Description: chloride channel, nucleotide-sensitive, 1A [Source:HGNC Symbol;Acc:2080]

Sequence

>retro_mputfur_435
GTGTCCAGGGATCTAAGTGCCTATCCACGAGAGTATTTCTATGTTATGGTGAATGCCAGATCTGGGGAAGAATCAAAAGA
ATCTGTTGCTGAAGAGAAGACAGTGATGATAATGTTGAACCTCTTGCTGAATTTAGATTTGTGCTTAGTGATAAATCAGC
AATGCTCACTGCACTGTGTGAATGCCAGGCTTTGCATCCAGATCCTGAGGATGATGATTCAGATGATTGTGATGGAGCAG
AATAGGATATGGAAGCCCAGGATAAGAGCAGGAAGACATCCTTCCATTTTACACCTATGAAGAAGGATTATCCCATTTAA
CAGCAGAAGGCCAAGCCGCACTGACGATATCAGAACGAATGCTCTCTCAGTCTGTACGCAGCCTGTGTAACATGGCTGGA
GTCTGGACAAGATTCAGT

Alignment

ORF - retro_mputfur_435 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.92 %
• Parental protein coverage: 50.35 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  VSRDLNAYPREHLYVMVNAKFGEESKESVTEEE-EDSDDDGEPIAEFRFVPSDKSALEAMFTAMCECQAL
          VSRDL.AYPRE..YVMVNA..GEESKESV..EE.EDSDD..EP.AEFRFV.SDKS...AM.TA.CECQAL
Retrocopy VSRDLSAYPREYFYVMVNARSGEESKESVA-EE<EDSDDNVEPLAEFRFVLSDKS---AMLTALCECQAL

Parental  HPDPEDEDSDDYDGEEYDVEAHEQG-QGDIPTFYTYEEGLSHLTAEGQATLERLEGMLSQSVSSQYNMAG
          HPDPED.DSDD.DG.E.D.EA.....Q.DI..FYTYEEGLSHLTAEGQA.L...E.MLSQSV.S..NMAG
Retrocopy HPDPEDDDSDDCDGAE*DMEAQDKS<QEDILPFYTYEEGLSHLTAEGQAALTISERMLSQSVRSLCNMAG

Parental  VRTEDS
          V.T..S
Retrocopy VWTRFS

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Mustela putorius furo was not studied using RNA-Seq expression data.

ChIP-Seq

Mustela putorius furo was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mputfur_435 retrocopy.

TSS

Mustela putorius furo was not studied using FANTOM5 data.

Lab

retro_mputfur_435 was not experimentally validated.

Homology

Retrocopy orthology:

Mustela putorius furo 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 11 parental genes, and 20 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000004900	6 retrocopies	retro_cfam_1112, retro_cfam_1448, retro_cfam_255, retro_cfam_327, retro_cfam_720, retro_cfam_727,
Choloepus hoffmanni	ENSCHOG00000007254	1 retrocopy	retro_chof_1685,
Callithrix jacchus	ENSCJAG00000014927	1 retrocopy	retro_cjac_4085,
Cavia porcellus	ENSCPOG00000005260	1 retrocopy	retro_cpor_67,
Dasypus novemcinctus	ENSDNOG00000008188	1 retrocopy	retro_dnov_477,
Felis catus	ENSFCAG00000026321	1 retrocopy	retro_fcat_736,
Macropus eugenii	ENSMEUG00000005935	4 retrocopies	retro_meug_1825, retro_meug_2097, retro_meug_783, retro_meug_929,
Myotis lucifugus	ENSMLUG00000024623	2 retrocopies	retro_mluc_1501, retro_mluc_1507,
Mustela putorius furo	ENSMPUG00000015944	1 retrocopy	retro_mputfur_435 ,
Oryctolagus cuniculus	ENSOCUG00000024393	1 retrocopy	retro_ocun_1303,
Tupaia belangeri	ENSTBEG00000001316	1 retrocopy	retro_tbel_2975,