RetrogeneDB ID: retro_tsyr_2056

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_84078:3076..3881(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C12orf43
• Ensembl ID: ENSTSYG00000009317
• Aliases: None
• Description: chromosome 12 open reading frame 43 [Source:HGNC Symbol;Acc:25719]

Sequence

>retro_tsyr_2056
ATGGCGGCGTTCAAGGGCGCAGTGAGCGATTGAGAAAGCAGTAGCAGCAGCAGCGATGGGGGAGAAGCTGGCACGGTGCC
GGGAAGCGGCGATGCCGGCCTGGGACTTGAAGAAGGGCCCACAGGGGTCAGAGAAACCAAGAAGCGGTGCTGCAAATAAC
CAGTTGCCAACCTCCCAGCCAAGCCTCAGGCACAAGGTGGATGAGCACGAACGAGAGGGCAATGAGCTTCAGACCACCCC
TGAGTTCCGAGCCCACGTAGCCAAGAAGCTGGGAACCCTACTGGACAGCTTCATTACCATCTCCGAAGTAGCAAAAGAGC
CAGCAAAAACTGAAGTACAGAAAGTCACCTCAGAGGATGACGGCTTCCGCCTTTTCTTCACGTCCATTCCTGGAGGCCCT
GAGAAGGAAACTTCTCCCCCGCCCTGCTGCAAGCGACAACCTTCCAGCTCCAGCAGCAGCGAGGACAGTGACGAGGAGTG
GCAGAGGTGCTGGGAGGCAGCTGTGTCAGTATCCGACATCCTCTGGGAGTCAGCCATCCACAGTCCTGTCAGGGAGGAGA
AGGAGGCAAGAAAGAAAAGAAAGTTGAAAAAGAAAGCCAAGAAGGCGGGCAGCGTCGACTCGGTTGTAACCACCACTGTC
ACTACCAATGGTGCTGGGGTCCAGAAGCAGGAGGAGTCAGGCAAGCCCAATGGGGACCAGATGCTGTTTGGGACCAAAAA
GAAAAAAAGAAAGGAAAAGGCCAAGAAGGCCAGTGAGGCATCTCTGTTCCCACCAACAAAGAGCGCCGCAGCTGTACCTG
CAAAC

Alignment

ORF - retro_tsyr_2056 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.58 %
• Parental protein coverage: 99.62 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAVFSGAVRDSENGSSGSDG-EELARSQEVAIPSWDLKKGLQGPEKPRSGAANNQLRASQPSLRHKVDEH
          MA.F.GAV.D.E..SS.SDG.E.LAR..E.A.P.WDLKKG.QG.EKPRSGAANNQL..SQPSLRHKVDEH
Retrocopy MAAFKGAVSD*ESSSSSSDG>EKLARCREAAMPAWDLKKGPQGSEKPRSGAANNQLPTSQPSLRHKVDEH

Parental  EQDANELQTTLEFR-HVAK-LGALLDSFITISEVAKEPAKTEVQKVASEDDGFRLFFTSIPGGPEKEASP
          E...NELQTT.EFR.HVAK.LG.LLDSFITISEVAKEPAKTEVQKV.SEDDGFRLFFTSIPGGPEKE.SP
Retrocopy EREGNELQTTPEFRAHVAKKLGTLLDSFITISEVAKEPAKTEVQKVTSEDDGFRLFFTSIPGGPEKETSP

Parental  P-CHRRQPSTSSS-EHSDEEWQRCWEAAVSVSDILWESAIHSPVREEKEARKKRKSEKKAKKAASVHSAV
          P.C..RQPS.SSS.E.SDEEWQRCWEAAVSVSDILWESAIHSPVRE..................SV.S.V
Retrocopy PPCCKRQPSSSSSSEDSDEEWQRCWEAAVSVSDILWESAIHSPVREXXXXXXXXXXXXXXXXXGSVDSVV

Parental  TTTVTTNGAMVQKQEESGKPNGDQMLFGTKKKKRKEKAKKASEASLFPPAKSAAAVPAN
          TTTVTTNGA.VQKQEESGKPNGDQMLFGT........AKKASEASLFPP.KSAAAVPAN
Retrocopy TTTVTTNGAGVQKQEESGKPNGDQMLFGTXXXXXXXXAKKASEASLFPPTKSAAAVPAN

Legend:

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

Expression

RNA-Seq

Tarsius syrichta was not studied using RNA-Seq expression data.

ChIP-Seq

Tarsius syrichta was not studied using ChIP-Seq data.

EST

Tarsius syrichta was not studied using EST data.

TSS

Tarsius syrichta was not studied using FANTOM5 data.

Lab

retro_tsyr_2056 was not experimentally validated.

Homology

Retrocopy orthology:

Tarsius syrichta 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000000382	1 retrocopy	retro_dnov_1611,
Microcebus murinus	ENSMICG00000008728	2 retrocopies	retro_mmur_628, retro_mmur_84,
Tarsius syrichta	ENSTSYG00000009317	2 retrocopies	retro_tsyr_2056 , retro_tsyr_257,