RetrogeneDB ID: retro_tsyr_993

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_267325:1474..1963(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CLDN11
• Ensembl ID: ENSTSYG00000006763
• Aliases: None
• Description: claudin 11 [Source:HGNC Symbol;Acc:8514]

Sequence

>retro_tsyr_993
ATGGTGGACACGTGCCTGCAGATGTTGGGCTCGTCACGAACTTTGTGGGCTGGATCGGCCTCATCATGTCAACGTCCACC
AATGATTCAGTGGTGACGTGTGGCTACACCGTCCCTACCTGCGGCAAACTGGATGTACTGGGCTCCCAAGGGGCTGTGGG
CCGACTGCGTCATGGCCACGGGGCTCTACCACTACAAACCCCAGGTATACATCCTCATCCTGCCGGACTATGTTCAGGCT
TGCCGAGCCCTAATGATTGCTACCTCTGTTCTGGGTTTGCCGTCTATTTTGCTGCAGCTGACGGTTCTTCCTTGTATCCG
GATGGGCCATGAGCGTGGTGTGACCAGGTATAGGTGGGACCAGCTGGCTGGTGTTTTGCTCATTCTGCTGGTTCTTTGCG
CCATCGTTGCCACCATCTGATTCCCTGTGTGTGCCCATCGTGAGACCACCATCATGAGCTTTGGCCACTCCCTGTAGGCT
GGATGGGTG

Alignment

ORF - retro_tsyr_993 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.03 %
• Parental protein coverage: 78.64 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MVATCLQV-VGFVTSFVGWIGIIVTTSTNDWVVTCGYTIPTCRKLDELGS-KGLWADCVMATGLYHYKPQ
          MV.TCLQ..VG.VT.FVGWIG.I..TSTND.VVTCGYT.PTC.KLD.LGS.KGLWADCVMATGLYHYKPQ
Retrocopy MVDTCLQM<VGLVTNFVGWIGLIMSTSTNDSVVTCGYTVPTCGKLDVLGS>KGLWADCVMATGLYHYKPQ

Parental  VYILILP-YVQACRALMIAASVLGLPAILLLLTVLPCIRMGHEPGVAKYRRAQLAGVLLILLALCAIVAT
          VYILILP.YVQACRALMIA.SVLGLP.ILL.LTVLPCIRMGHE.GV..YR..QLAGVLLILL.LCAIVAT
Retrocopy VYILILPDYVQACRALMIATSVLGLPSILLQLTVLPCIRMGHERGVTRYRWDQLAGVLLILLVLCAIVAT

Parental  IWFPVCAHRETTIVSFGYSLYAGWI
          I.FPVCAHRETTI.SFG.SL.AGW.
Retrocopy I*FPVCAHRETTIMSFGHSL*AGWV

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_993 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 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Tarsius syrichta	ENSTSYG00000006763	1 retrocopy	retro_tsyr_993 ,