RetrogeneDB ID: retro_tsyr_20

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_652585:3..423(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTSYG00000010920
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: ITM2B
• Ensembl ID: ENSTSYG00000001560
• Aliases: None
• Description: integral membrane protein 2B [Source:HGNC Symbol;Acc:6174]

Sequence

>retro_tsyr_20
GAACGCATCAAAGTCCCCGTGCCCCAGGGTGGCGGCGGCGACCCTGCAGACATCATCCATGACTTCCAGCGGGGTCTGGT
CGCCTACCACGACATCTCCCTGGACAAGTGCTATGTCATCGAGCTCAGCACCACCATCTTGCTGCCCCTTCGTAACTTCT
GGGAGCTCCTCATGAACAGAGGGACCTCCCTCCCACAGACGTACATCGTCCAGGAGGACATGGTGGTCATGGAGCATGTC
AGTGACAAGGAGTCCCTAGGCTCCTTCATCTACCACCTGTGCCCTAACGGGAAGGACACCTATCGGCTGCGACGCCGGGC
AACAGATAGGCGGATCCACAAGCGTGGAGCCAAGAACTGCAAGGCTATCCAGCACTGCAAGAACACGGTGGTGGAGACAC
TCATCTGCGGAGCAGTGTGA

Alignment

ORF - retro_tsyr_20 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.08 %
• Parental protein coverage: 60.79 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EFISVPVPEFADSDPANIVHDFNKKLTAYLDLNLDKCYVIPLNTSIVMPPRNLLELIINIKAGTYLPQSY
          E.I.VPVP.....DPA.I.HDF...L.AY.D..LDKCYVI.L.T.I..P.RN..EL..N...GT.LPQ.Y
Retrocopy ERIKVPVPQGGGGDPADIIHDFQRGLVAYHDISLDKCYVIELSTTILLPLRNFWELLMN--RGTSLPQTY

Parental  LIHEHMVITDRIENVDHLGFFIYRLC-HDKETYKLQRRETIKGIQKREASNCATIRHFENKFAVETLIC
          ...E.MV..........LG.FIY.LC...K.TY.L.RR.T...I.KR.A.NC..I.H..N...VETLIC
Retrocopy IVQEDMVVMEHVSDKESLGSFIYHLCPNGKDTYRLRRRATDRRIHKRGAKNCKAIQHCKNT-VVETLIC

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_20 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000005617	1 retrocopy	retro_meug_27,
Microcebus murinus	ENSMICG00000001759	1 retrocopy	retro_mmur_64,
Monodelphis domestica	ENSMODG00000011189	1 retrocopy	retro_mdom_1651,
Tarsius syrichta	ENSTSYG00000001560	1 retrocopy	retro_tsyr_20 ,