RetrogeneDB ID: retro_shar_300

Retrocopy location

• Organism: Tasmanian devil (Sarcophilus harrisii)
• Coordinates: GL841267.1:947220..948198(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SEPHS2
• Ensembl ID: ENSSHAG00000004297
• Aliases: None
• Description: selenophosphate synthetase 2 [Source:HGNC Symbol;Acc:19686]

Sequence

>retro_shar_300
CTCGGCATAGGCATGGACTCCTGCGTGATCCCCCTGAGGCACGGCGGGCTCTCGCTGGTGCAGACCACGGACTTCTTTTA
CCCGCTGGTTGACGACCCCTACATGATGGGGCGGATTGCCTGCGCCAACGTGCTAAGCGATCTTTACGCCATGGGCATCA
CCGAGTGCGATAACATGCTGATGCTACTCAGCGTCAGCCAAAAGATGAATGAGGATGAAAGAGAAAAAATCATGCCTCTT
ATGATCAAAGGCTTTAGGGATGCTGCTGAGGAAGGAGGCACATCAGTGACGGGCGGACAGACGGTGGTAAACCCCTGGAT
CATAATCGGAGGGGTGGCTACTGTGGTCTGTCAGCCGAATGAGTTTATCATGCCGGATAGTGCAGTTCCTGGGGACGTGC
TGGTGCTGACCAAACCTTTAGGAACTCAGGTGGCAGTCAATGCCCACCAGTGGCTGGATAATCCAGAGAGGTGGAACAAA
ATAAGATTGGTGGTCACCAGAGAAGATGTCGAATTAGCTTATCAAGAGGCCATGTTTAGTATGGCCATGCTGAATAGAAC
TGCGGCTGGATTAATGCACACTTATAATGCTCATGCTGCCACTGATGTCACTGGCTTTGGAATCTTGGGACATGCTCAGA
ACCTGGCAAAGCAACAAAGAAGTCAAGTATCCTTTGTTATTCATAACCTTCCAATCATCGCCAAAATGGCCGCTATTAGT
AAGGCCAGTGGGCGCTTTGGTCTGCTCCAGGGAACATCTGCAGAAACCTCTGGAGGTTTACTGATTTGTCTACCCCGAGA
GCATGCCGCTCGTTTCTGTGCTGAGCTTAGATCCCCTAAATATGGAGAGGGTCACCAAGCATGGATTATTGGCATTGTGG
AAAAAGGTAACCAGACTGCCCGCATCATCGACAGGCCAGGGATTATTGAAGTCGCACCACGTGGAACTACTGTACCTCTT
CATCCCAATAATTCCACT

Alignment

ORF - retro_shar_300 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.88 %
• Parental protein coverage: 98.49 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VGIGMDSCVIPLRHGGLSLVQTTDFFYPLVEDPYMMGRIACANVLSDLYAMGITDCDNMLMLLSVSQKMS
          .GIGMDSCVIPLRHGGLSLVQTTDFFYPLV.DPYMMGRIACANVLSDLYAMGIT.CDNMLMLLSVSQKM.
Retrocopy LGIGMDSCVIPLRHGGLSLVQTTDFFYPLVDDPYMMGRIACANVLSDLYAMGITECDNMLMLLSVSQKMN

Parental  EEEREKIMPLMVKGFRDAAEEGGTSVTGGHTVINPWIIIGGVATVVCQPNEFIMPDSAIPGDVLVLTKPL
          E.EREKIMPLM.KGFRDAAEEGGTSVTGG.TV.NPWIIIGGVATVVCQPNEFIMPDSA.PGDVLVLTKPL
Retrocopy EDEREKIMPLMIKGFRDAAEEGGTSVTGGQTVVNPWIIIGGVATVVCQPNEFIMPDSAVPGDVLVLTKPL

Parental  GTQVAVNAHQWLDNPEKWNKIKLVVSKEEVELAYQEAMFSMAMLNRTAAGLMHTFNAHAATDITGFGILG
          GTQVAVNAHQWLDNPE.WNKI.LVV..E.VELAYQEAMFSMAMLNRTAAGLMHT.NAHAATD.TGFGILG
Retrocopy GTQVAVNAHQWLDNPERWNKIRLVVTREDVELAYQEAMFSMAMLNRTAAGLMHTYNAHAATDVTGFGILG

Parental  HAQNLAKQQRSEVSFVIHNLPIIAKMAAVSKASGRFGLLQGTSSETSGGLLICLPREQAARFCAEIKSPK
          HAQNLAKQQRS.VSFVIHNLPIIAKMAA.SKASGRFGLLQGTS.ETSGGLLICLPRE.AARFCAE..SPK
Retrocopy HAQNLAKQQRSQVSFVIHNLPIIAKMAAISKASGRFGLLQGTSAETSGGLLICLPREHAARFCAELRSPK

Parental  YGEGHQAWIIGIVEKGNQTARIIDKPRIIEVMPRGATILLDNSNTS
          YGEGHQAWIIGIVEKGNQTARIID.P.IIEV.PRG.T..L...N..
Retrocopy YGEGHQAWIIGIVEKGNQTARIIDRPGIIEVAPRGTTVPLHPNNST

Legend:

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

Expression

RNA-Seq

Sarcophilus harrisii was not studied using RNA-Seq expression data.

ChIP-Seq

Sarcophilus harrisii was not studied using ChIP-Seq data.

EST

Sarcophilus harrisii was not studied using EST data.

TSS

Sarcophilus harrisii was not studied using FANTOM5 data.

Lab

retro_shar_300 was not experimentally validated.

Homology

Retrocopy orthology:

Sarcophilus harrisii 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Sarcophilus harrisii	ENSSHAG00000004297	1 retrocopy	retro_shar_300 ,