RetrogeneDB ID: retro_pvam_1217

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: scaffold_4332:82382..82877(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DNTTIP1
• Ensembl ID: ENSPVAG00000000368
• Aliases: None
• Description: deoxynucleotidyltransferase, terminal, interacting protein 1 [Source:HGNC Symbol;Acc:16160]

Sequence

>retro_pvam_1217
CCTTGGAACATAACGGTAAAGCCCCGGCAGTTGCAGCGAAGGGGCCGCCGCTTGCAGATGACAAGTTTCACATATCCTTC
CATCTCCATGGACTTCCTTCGAGCTGTCCTGCAGCCTGGCATCAATGAAGAGATCCAGACTGTCTTCAACAAGTACATGA
AGTTCTTCCAGAAGGCAGCACTGAATGTGCAAGACAACGTTGGGGAAGAGGCGGATGCAGAGCAGCTGATCCAGGAGGCC
TGTGGGAGCTGCCTGGAGCAGGCTAAACTACTGTTTTCAGATGGAGAAACAATTATACCCAGATTGACCCATGAGCTTCC
AGGCATAACGTGTGGTGGACAGGCAGAGGAAGAATATGCCCATCGAGGAAGCCCCATTCCCCAAAAGAGGAAGGGACGGC
CTCCTGGACACATCCTGTTAAATGACTGGGCAGCCACTGGCATGGTATGGAAACCAAAATCCTGTGAACCAATTCGTGGA
GAAGGCCCCAAATGG

Alignment

ORF - retro_pvam_1217 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.14 %
• Parental protein coverage: 50.61 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PWNIMIKHRQVQRRGRRSQMTTSFTDPSISMDLLRAVLQPSINEEIQTVFNKYMKFFQKAALNVRDNVGE
          PWNI..K.RQ.QRRGRR.QMT.SFT.PSISMD.LRAVLQP.INEEIQTVFNKYMKFFQKAALNV.DNVGE
Retrocopy PWNITVKPRQLQRRGRRLQMT-SFTYPSISMDFLRAVLQPGINEEIQTVFNKYMKFFQKAALNVQDNVGE

Parental  EVDAEQLIQEACRSCLEQAKLLFSDGEKVIPRLTHELPGIKRGRQVEEECAHRGSPIPKKRKGRPPGHIL
          E.DAEQLIQEAC.SCLEQAKLLFSDGE..IPRLTHELPGI..G.Q.EEE.AHRGSPIP.KRKGRPPGHIL
Retrocopy EADAEQLIQEACGSCLEQAKLLFSDGETIIPRLTHELPGITCGGQAEEEYAHRGSPIPQKRKGRPPGHIL

Parental  ANDRAATGMVWKPKSCEPIRREGPKW
          .ND.AATGMVWKPKSCEPIR.EGPKW
Retrocopy LNDWAATGMVWKPKSCEPIRGEGPKW

Legend:

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

Expression

RNA-Seq

Pteropus vampyrus was not studied using RNA-Seq expression data.

ChIP-Seq

Pteropus vampyrus was not studied using ChIP-Seq data.

EST

Pteropus vampyrus was not studied using EST data.

TSS

Pteropus vampyrus was not studied using FANTOM5 data.

Lab

retro_pvam_1217 was not experimentally validated.

Homology

Retrocopy orthology:

Pteropus vampyrus 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
Mus musculus	ENSMUSG00000017299	1 retrocopy	retro_mmus_2387,
Pteropus vampyrus	ENSPVAG00000000368	1 retrocopy	retro_pvam_1217 ,
Sarcophilus harrisii	ENSSHAG00000002289	1 retrocopy	retro_shar_514,