RetrogeneDB ID: retro_tsyr_1417

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_43338:13929..15004(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ARL13B
• Ensembl ID: ENSTSYG00000000608
• Aliases: None
• Description: ADP-ribosylation factor-like 13B [Source:HGNC Symbol;Acc:25419]

Sequence

>retro_tsyr_1417
AAGGTGATTCTTGTGATGGTGGGACTTCATAAAGCTGATAAAACGGCAATGGCCAAGGGAGTCCAAGGAGAATTCCTGGA
AGATGCAGCTCCTACTGTTGGATTTTCCAAAATTGACCTTAGACAAGGAAAGTTTGAAGTCACCATCTTTGATTTGGGAG
GTGGAAAAAGAATTCAGGGAATCTGGAAGAATTACTATGCTGAATCCTATGGGCTAACATTTGTTGTGGATTCTAGTGAT
GAAGAAAGAATGGAAGAGACAAAAGAGACAATGTCAGAAGTACTGAGACATCCTAGGATATCAGGAAAGCCTATATTGGT
ATTGGCAAATAAACAAGATAAGGAAGGAGCTTTAGGAGAGCTGATGTGATTGAATGTCTGTCTTTGGAAAAACTGGTCAA
TGAGCACAAGTGCCTGTGTCAAATAGAACCTTGCTCAGCAGTCTCAGGGTATGGAAAGAAAATTGACGAATCCATTAAAA
AAGACCTTTATTGGCTGCTACATATCATTGCAAAAGACTTTGATGCCTTAAATGAACACATCCAAAAAGATACAACAGAA
CAGCGTGCTCTTGAGGAGCAAGAGAAACGAGAAAGGGCTGAGCGAGTGAGGAAATTGTGAGAAGAAAGAAAGCAAAGAGA
AGAGGAGCAAGCTGAGCTCGATGGAACCGGTGGTCAGGCTGAGTTGGACCCAGAACCAACTAATCCTTTCCAGCCAATAG
CGTCTGTGATCATTGAGAATGAAAAAAAAAAACTTGAAAAAGAGAAAAAGAAGCAGAAGATGGAGAAAGACAGTGATGAC
TACCAACTAAAACACAGAATAGAGCCTGAGCAAATAGAGACACAGAGCCAGATTGGTGACAGTAGCCAAAAAAATGATGA
ACTTGGACTAGTAGACAATTATAAGGAGGCCTTAATACAATAGCTGGAGAGTGAAGATGAGACAGACCAGCGATCATCAG
AATCAGATAATGGCAAAACGAAACTAAAAGACTAAGAATGAAAAGGAGTCACCGGGTAGAACCAATTAACCCAGACGACT
CTGCTCCTAAGTGTCCAGCACCACCCCCACCCCCA

Alignment

ORF - retro_tsyr_1417 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.27 %
• Parental protein coverage: 87.75 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  KVTLVMVGLDNAGKTATAKGIQGESPEDVAPTVGFSRIDLRQGKFEVTIFDLGGGKRIRGIWKNYYAESY
          KV.LVMVGL..A.KTA.AKG.QGE..ED.APTVGFS.IDLRQGKFEVTIFDLGGGKRI.GIWKNYYAESY
Retrocopy KVILVMVGLHKADKTAMAKGVQGEFLEDAAPTVGFSKIDLRQGKFEVTIFDLGGGKRIQGIWKNYYAESY

Parental  GVIFVVDSSDEERMEETKETMSEVLRHPRISGKPILVLANKQDKEGALGE-ADVIECLSLEKLVNEHKCL
          G..FVVDSSDEERMEETKETMSEVLRHPRISGKPILVLANKQDKEGALGE.ADVIECLSLEKLVNEHKCL
Retrocopy GLTFVVDSSDEERMEETKETMSEVLRHPRISGKPILVLANKQDKEGALGE<ADVIECLSLEKLVNEHKCL

Parental  CQIEPCSAVLGYGKKIDKSIKKGLYWLLHIIARDFDALNERIQKDTTEQRALEEQEKRERAERVRKLREE
          CQIEPCSAV.GYGKKID.SIKK.LYWLLHIIA.DFDALNE.IQKDTTEQRALEEQEKRERAERVRKL.EE
Retrocopy CQIEPCSAVSGYGKKIDESIKKDLYWLLHIIAKDFDALNEHIQKDTTEQRALEEQEKRERAERVRKL*EE

Parental  RKQREEEQAELDGTGGLTELDPEPTNPFQPIAS-VIIENEKKLEKEKNKQKMEKXXXXXXXXXXXXXXXX
          RKQREEEQAELDGTGG..ELDPEPTNPFQPIAS..I............KQKMEK................
Retrocopy RKQREEEQAELDGTGGQAELDPEPTNPFQPIASVIIENXXXXXXXXXXKQKMEKDSDDYQLKHRIEPEQI

Parental  XXXXQIGDSSQKNDELGLVDNYKEALTQQLENEDETDQRSSESDNGKRK-TKKLRMKRSHRVEPINPDDS
          ....QIGDSSQKNDELGLVDNYKEAL.Q.LE.EDETDQRSSESDNGK.K.TK.LRMKRSHRVEPINPDDS
Retrocopy ETQSQIGDSSQKNDELGLVDNYKEALIQ*LESEDETDQRSSESDNGKTK<TKRLRMKRSHRVEPINPDDS

Parental  APKSPAPAPPP
          APK.PAP.PPP
Retrocopy APKCPAPPPPP

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_1417 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Tarsius syrichta	ENSTSYG00000000608	4 retrocopies	retro_tsyr_1074, retro_tsyr_1417 , retro_tsyr_1775, retro_tsyr_590,