RetrogeneDB ID: retro_tsyr_1331

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_401032:356..1210(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: KRT84
• Ensembl ID: ENSTSYG00000006538
• Aliases: None
• Description: keratin 84 [Source:HGNC Symbol;Acc:6461]

Sequence

>retro_tsyr_1331
ATTCCAGCCATCACCGTGAACTAGAGGCTGCTGAGTCCCCTTAAGCTGGAGGTGCACCCCAACATCCAGGCTGTGCGCAC
CCAGGAGAAGGAGCAGATCAGGACCCTCAACAACAAGTTTGCCTCCTTCATCGACAAGGTGCGGTTCTTGGAGCAGCAAA
ACAAGGTGCTGGAGACTAAGTGGAGCCTCCTGCAGCAGAAGACAGCCCGCAGCAACATGGACAACATGTTCAATAGATAC
ATCAACAGCCTCTGGCGGCAGCCAGACACACTGGGCCAGGAGAAACTGAAGCTGGAGGCCGACCTGGGCAACATGCAGGG
CCTGGTGGAGAACACCAAGAACAAGTACGAGGATGAAATCAACAAGCGCACAGAGATGGAGAGTGAATTCCTCCTCATCA
AGAAGGATGTGGATGAAGCTTACATGAACGAGGTGGAGCTGGAGCTTGCCTGGAGGGGCTGACTGATGAGACCAACCTCC
TCAGGCAGCTGTATGAGGAGGAGATCCGTGAACTGCAGTCCCAGATCTCAGACACATCTGTGTTCTTGTCCATGGACAAC
AGCTACTCCCTGGACATGGACGGCATCATCGCCGAGGTCCACGCCCAGTACGAAGAGATTGCCAACCACAGCCGGGCCCT
GGCTGAGAGCATGTACCAGACCAAGTATGAGGAGCTGTAGACGCTGGTCGGGAAGCACTGGGATGACCTGCGCCGCACCA
AGACGGAGATCTCCAAGATGAACCAGAACATCAGCCAGCTGCAGGCTGAGATCGAGGGTCTCAAAGGCCAGAGGGCTTCC
CTGGAGGCCGCCATCGCAGCCGCAGAGCAGCGTGGGGAGATGGCCGCTAAGGAC

Alignment

ORF - retro_tsyr_1331 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 55.4 %
• Parental protein coverage: 58.73 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ITAVTVNQSLLTPLNLEIDPNAQRVKKDEKEQIKTLNNKFASFIDKVRFLEQQNKLLETKWSFLQEQKRV
          I.A.TVN..LL.PL.LE..PN.Q.V...EKEQI.TLNNKFASFIDKVRFLEQQNK.LETKWS.LQ.QK..
Retrocopy IPAITVN*RLLSPLKLEVHPNIQAVRTQEKEQIRTLNNKFASFIDKVRFLEQQNKVLETKWSLLQ-QKTA

Parental  RSNLEPLFEGYISTLRRELEVQVSDQARLQAERNHMQDVLEGFKKKYEEEVVLRANAENEFVALKKDVDT
          RSN....F..YI..L.R...........L.A....MQ...E..K.KYE.E...R...E.EF...KKDVD.
Retrocopy RSNMDNMFNRYINSLWRQPDTLGQEKLKLEADLGNMQGLVENTKNKYEDEINKRTEMESEFLLIKKDVDE

Parental  AFLSKSDLE-ANMEALIQEIDFLKTLYMEEIQLLQSHISETSVIVKMDNSRDLNLDGIIAEVKAQYEEVA
          A......LE.A..E.L..E...L..LY.EEI..LQS.IS.TSV...MDNS..L..DGIIAEV.AQYEE.A
Retrocopy AYMNEVELE<ACLEGLTDETNLLRQLYEEEIRELQSQISDTSVFLSMDNSYSLDMDGIIAEVHAQYEEIA

Parental  RRSRADAEAWYQTKYEEMQVTAGQHCDNLRNTRNEINELTRLIQRLKAEIEHAKAQRAKLEAAVAEAEQQ
          ..SRA.AE..YQTKYEE.....G.H.D.LR.T..EI......I..L.AEIE..K.QRA.LEAA.A.AEQ.
Retrocopy NHSRALAESMYQTKYEEL*TLVGKHWDDLRRTKTEISKMNQNISQLQAEIEGLKGQRASLEAAIAAAEQR

Parental  GEVALND
          GE.A..D
Retrocopy GEMAAKD

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_1331 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 1 parental gene, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Tarsius syrichta	ENSTSYG00000006538	3 retrocopies	retro_tsyr_1195, retro_tsyr_1331 , retro_tsyr_929,