RetrogeneDB ID: retro_shar_648

Retrocopy location

• Organism: Tasmanian devil (Sarcophilus harrisii)
• Coordinates: GL856919.1:4031877..4032257(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RALB
• Ensembl ID: ENSSHAG00000012747
• Aliases: None
• Description: v-ral simian leukemia viral oncogene homolog B [Source:HGNC Symbol;Acc:9840]

Sequence

>retro_shar_648
TACTTCTGTAGTGGGGAGGGGTTTCTCTTAGTTTTCTCCATAACAGAACATGAATCCTTTACAGCCACAGCAGAATTCAG
GGAACAGATTCTGTGTGTTAAGGCTGAAGAAGATAAAATCCCTTTGCATGTGGTTGGAAACAAATCCGACTTGCAAGAGA
GGAGACAGGTACCCATTGAAGAAGCCAGAAGTAAAGCAGAGGAATGGGGTGTCCAGTATGTAGAGACATCTGCCAAAACT
AGAGCCAATGTAGACAAAGTATTTTTTGATTAAATGAGAGAAATAAGAGCAAAGAAGATGTCAAAAAACAAAGATAAGAA
TGGTAAAAAAAAAAAAAAAGCAGCAAGAACAAGAAAAGCTTTAAAGAAAGATGCTGTTTA

Alignment

ORF - retro_shar_648 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.16 %
• Parental protein coverage: 59.33 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  YFRSGEGFLLVFSITEHESFTATAEFREQILRVKAEEDKIPLLVVGNKSDLEERRQVPIEEARSKAEEWG
          YF.SGEGFLLVFSITEHESFTATAEFREQIL.VKAEEDKIPL.VVGNKSDL.ERRQVPIEEARSKAEEWG
Retrocopy YFCSGEGFLLVFSITEHESFTATAEFREQILCVKAEEDKIPLHVVGNKSDLQERRQVPIEEARSKAEEWG

Parental  VQYVETSAKTRANVDKVFFDLMREIRAKKMSENKDKNG---KKSSKNKKSFK-ERCCL
          VQYVETSAKTRANVDKVFFD.MREIRAKKMS.NKDKNG..........K..K.ERCCL
Retrocopy VQYVETSAKTRANVDKVFFD*MREIRAKKMSKNKDKNGXXXXXAARTRKALK<ERCCL

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_648 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Gorilla gorilla	ENSGGOG00000001648	1 retrocopy	retro_ggor_79,
Sarcophilus harrisii	ENSSHAG00000011497	1 retrocopy	retro_shar_425,
Sarcophilus harrisii	ENSSHAG00000012747	1 retrocopy	retro_shar_648 ,