RetrogeneDB ID: retro_meug_1049

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold270152:1126..1709(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SLC31A1
• Ensembl ID: ENSMEUG00000015425
• Aliases: None
• Description: solute carrier family 31 (copper transporter), member 1 [Source:HGNC Symbol;Acc:11016]

Sequence

>retro_meug_1049
AACTCCAGACACGGTCATGGAATGACCCATATGGACCCTATGAGCCATATGAACCATAATAGTGCTATGCCCCCCCTAAC
ATCATCCATCCACTACACTCTTTCACAGTCATGGAGGAGGAGGAGACATGATGATGATGATTCCCATGACCTTCTAATTT
GGCTATAAGAATGTGGAATTGTTGTTTCTTGGATTAATTATCAATACACCAGGGGAAATGGCTGGGGCATTTGTGGCTAT
CTTTTTATTAGCAATGTTCTATGAAGGCCTCAATATAGGATGGAAGAGCCTGCTTCATAAATCCCAGGTCAGCATTCACT
ACAACTCCATGCCAGTCCCAGGGCCAAAAGGAACCATCCTTATGGAAACACACAAAACTGTTGGGCAACAGATGCTGAGT
TTCCCTTGTCTTCTGCAGACAGTGCTGCATGTCATCCAGGTGGTCATCAGCTACCTCCTTATGCTTATCTTTATGACCTA
CAATGGGTACCTCTGCATCGTCGTGGCAGCAGGGGCTAGAACAGGCTACTTTCTCTTCAGCTGGAAGAAGGCAGTGGTAG
TGGACATCACAGAACACTGCCAT

Alignment

ORF - retro_meug_1049 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.56 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  DSGHGHGMSHMDHMSHMNHSTTVPPH-HHPSTTPSHSHGGG-DMMMMMPMTFYFGYKNVELLFSGLIINT
          .S.HGHGM.HMD.MSHMNH....PP..HHPSTT..HSHGGG.DMMMM.PMTF.FGYKNVELLF.GLIINT
Retrocopy NSRHGHGMTHMDPMSHMNHNSAMPPL>HHPSTTLFHSHGGGGDMMMMIPMTF*FGYKNVELLFLGLIINT

Parental  PGEMAGAFVAIFLLAMFYEGLKIGRESLLRKSQVSIRYNSMPVPGPNGTILMETHKTVGQLMLSFPHFLQ
          PGEMAGAFVAIFLLAMFYEGL.IG..SLL.KSQVSI.YNSMPVPGP.GTILMETHKTVGQ.MLSFP..LQ
Retrocopy PGEMAGAFVAIFLLAMFYEGLNIGWKSLLHKSQVSIHYNSMPVPGPKGTILMETHKTVGQQMLSFPCLLQ

Parental  TVLHVIQVVISYFLM----TYNGYLCITVAARA-TGYFLFSWKNAVVVDITEHCH
          TVLHVIQVVISY.LM....TYNGYLCI.VAA.A.TGYFLFSWK.AVVVDITEHCH
Retrocopy TVLHVIQVVISYLLMLIFMTYNGYLCIVVAAGARTGYFLFSWKKAVVVDITEHCH

Legend:

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

Expression

RNA-Seq

Macropus eugenii was not studied using RNA-Seq expression data.

ChIP-Seq

Macropus eugenii was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_meug_1049 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1049 was not experimentally validated.

Homology

Retrocopy orthology:

Macropus eugenii 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 9 parental genes, and 24 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000011908	5 retrocopies	retro_chof_1186, retro_chof_1646, retro_chof_1661, retro_chof_644, retro_chof_776,
Felis catus	ENSFCAG00000005512	1 retrocopy	retro_fcat_425,
Macropus eugenii	ENSMEUG00000015425	2 retrocopies	retro_meug_1049 , retro_meug_1533,
Microcebus murinus	ENSMICG00000015008	2 retrocopies	retro_mmur_1465, retro_mmur_46,
Myotis lucifugus	ENSMLUG00000015299	1 retrocopy	retro_mluc_2,
Nomascus leucogenys	ENSNLEG00000016636	1 retrocopy	retro_nleu_622,
Pongo abelii	ENSPPYG00000019514	3 retrocopies	retro_pabe_2386, retro_pabe_3548, retro_pabe_847,
Sorex araneus	ENSSARG00000012787	7 retrocopies	retro_sara_101, retro_sara_326, retro_sara_497, retro_sara_584, retro_sara_585, retro_sara_586, retro_sara_730,
Tupaia belangeri	ENSTBEG00000009011	2 retrocopies	retro_tbel_3123, retro_tbel_4170,