RetrogeneDB ID: retro_shar_75

Retrocopy location

• Organism: Tasmanian devil (Sarcophilus harrisii)
• Coordinates: GL834477.1:940821..941334(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSSHAG00000011989
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSSHAG00000002399
• Aliases: None
• Description: None

Sequence

>retro_shar_75
ATGACGGAGCTGCAGTCAGCGTTGCTCCTGAGAAGACAGCTGACAGAGCTCAACAAAAACCCTGTAGAAGGCTTCTCCGC
AGGATTAATAGACGGCAATGATCTCTACCGATGGGAGGTGCTCATCATTGGTCCTCCAGACACCCTTTACGAAGGTGGCG
TTTTCAAAGCTCATCTCACTTTCCCCAAAGATTATCCACTGCGACCTCCAGAAATGAAATTCATCACCGAAATCTGGCAC
CCAAATGTTGACAAAAACGGGGACGTGTGCATTTCCATTCTTCACGAACCGGGAGAGGACAAATATGGCTATGAAAAACC
CGAAGAACGCTGGCTGCCCATTCACACCGTGGAAACTATCATGATCAGTGTCATTTCTATGTTGGCAGATCCTAATGGAG
ACTCGCCAGCCAATGTGGACGCAGCCAAAGAATGGAGGGAAGACCGAAATGGAGAATTCAAAAGGAAAGTTGCCCGCTGT
GTAAGAAGAAGCCAGGAAACTGCTTTTGAGTGA

Alignment

ORF - retro_shar_75 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.66 %
• Parental protein coverage: 88.28 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SELNKNPVEGFSAGLIDDNDLYRWEVLIIGPPDTLYEGGVFKAHLTFPKDYPLRPPKMKFITEIWHPNVD
          .ELNKNPVEGFSAGLID.NDLYRWEVLIIGPPDTLYEGGVFKAHLTFPKDYPLRPP.MKFITEIWHPNVD
Retrocopy TELNKNPVEGFSAGLIDGNDLYRWEVLIIGPPDTLYEGGVFKAHLTFPKDYPLRPPEMKFITEIWHPNVD

Parental  KNGDVCISILHEPGEDKYGYEKPEERWLPIHTVETIMISVISMLADPNGDSPANVDAA
          KNGDVCISILHEPGEDKYGYEKPEERWLPIHTVETIMISVISMLADPNGDSPANVDAA
Retrocopy KNGDVCISILHEPGEDKYGYEKPEERWLPIHTVETIMISVISMLADPNGDSPANVDAA

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_75 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 14 parental genes, and 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000014433	1 retrocopy	retro_btau_604,
Choloepus hoffmanni	ENSCHOG00000011801	1 retrocopy	retro_chof_2181,
Ciona savignyi	ENSCSAVG00000009498	1 retrocopy	retro_csav_4,
Macropus eugenii	ENSMEUG00000009769	3 retrocopies	retro_meug_360, retro_meug_473, retro_meug_647,
Myotis lucifugus	ENSMLUG00000002118	1 retrocopy	retro_mluc_104,
Oryctolagus cuniculus	ENSOCUG00000000248	1 retrocopy	retro_ocun_152,
Otolemur garnettii	ENSOGAG00000008795	1 retrocopy	retro_ogar_2554,
Rattus norvegicus	ENSRNOG00000010041	3 retrocopies	retro_rnor_2496, retro_rnor_317, retro_rnor_970,
Sarcophilus harrisii	ENSSHAG00000002399	1 retrocopy	retro_shar_75 ,
Tupaia belangeri	ENSTBEG00000006117	1 retrocopy	retro_tbel_2852,
Tetraodon nigroviridis	ENSTNIG00000008566	1 retrocopy	retro_tnig_11,
Takifugu rubripes	ENSTRUG00000005995	1 retrocopy	retro_trub_4,
Tursiops truncatus	ENSTTRG00000000595	1 retrocopy	retro_ttru_1578,
Drosophila melanogaster	FBgn0058045	1 retrocopy	retro_dmel_6,