RetrogeneDB ID: retro_mputfur_1049

Retrocopy location

• Organism: Ferret (Mustela putorius furo)
• Coordinates: GL897002.1:4745824..4746135(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MAP1LC3A
• Ensembl ID: ENSMPUG00000017814
• Aliases: None
• Description: microtubule-associated protein 1 light chain 3 alpha [Source:HGNC Symbol;Acc:6838]

Sequence

>retro_mputfur_1049
GCTGACCACTATAAGGAGGTGTAGCATATTCACGACCAGCAACCCAGCAAGATCCTGATGATCACTGAGTGCTAAAGAGT
GAGAAGGAGCTGCCCATCCTGGACAAGACCAAGTTCCTGATCCCAGACCATGTCAACCAGTGTTAATTGATCAAGATGAT
CCAGCCTTGTCCACAGCTGAATCCCATGTAGGCCTTCTTCCTGCTGGTGAACCGGCACCACATGGTGAGCGTGCCCACGC
CTATTCTGGACATGTATGTGCAGGAGAAGGATGACCCTGGCTTCCTCTACATGGTCTACACCTCCCAGGAA

Alignment

ORF - retro_mputfur_1049 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.67 %
• Parental protein coverage: 59.09 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ADRCKEVQQIRDQHPSKIPVIIER-YKGEKQLPVLDKTKFLVPDHVNMSELVKIIRRRLQLNPTQAFFLL
          AD..KEV..I.DQ.PSKI..I.E...K.EK.LP.LDKTKFL.PDHVN...L.K.I....QLNP..AFFLL
Retrocopy ADHYKEV*HIHDQQPSKILMITEC<LKSEKELPILDKTKFLIPDHVNQC*LIKMIQPCPQLNPM*AFFLL

Parental  VNQHSMVSVSTPIADIYEQEKDDDGFLYMVYASQE
          VN.H.MVSV.TPI.D.Y.QEKDD.GFLYMVY.SQE
Retrocopy VNRHHMVSVPTPILDMYVQEKDDPGFLYMVYTSQE

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_1049 retrocopy.

TSS

Mustela putorius furo was not studied using FANTOM5 data.

Lab

retro_mputfur_1049 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.

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Parental genes homology:

Parental genes homology involve 7 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000012407	1 retrocopy	retro_etel_1766,
Felis catus	ENSFCAG00000022040	1 retrocopy	retro_fcat_1634,
Monodelphis domestica	ENSMODG00000002694	1 retrocopy	retro_mdom_1256,
Mustela putorius furo	ENSMPUG00000009894	1 retrocopy	retro_mputfur_993,
Mustela putorius furo	ENSMPUG00000010473	2 retrocopies	retro_mputfur_1290, retro_mputfur_258,
Mustela putorius furo	ENSMPUG00000017814	1 retrocopy	retro_mputfur_1049 ,
Ictidomys tridecemlineatus	ENSSTOG00000006158	2 retrocopies	retro_itri_287, retro_itri_988,