RetrogeneDB ID: retro_tsyr_1745

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_566191:130..769(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ILF2
• Ensembl ID: ENSTSYG00000012061
• Aliases: None
• Description: interleukin enhancer binding factor 2 [Source:HGNC Symbol;Acc:6037]

Sequence

>retro_tsyr_1745
TCTGAAGTTTGGACCATGCTGGCCAGCGAAACTGGCTTTGAAATGAGTTCTTCTGATGCTACGGTGACAATTCTTATTAC
AAGAATGCCACCCAGTACCTGAAAACTGGACCCAGAGCTTCATTTGGATATCAAGGTGTTGAAGAGGGCCTTAGCCGCTA
TGCGACATGCCCGCTGGTTGGAGGAAAATGCTTCTCAGTTCACAGTTGAAGTTCTCATCAGACTGTTGCAGGACTTGAGG
ATTCGTTTTTCTGGCTTTGAGCCCCTCACACCCTGGATTCTGTACCTACTTGGTCATTATGCTGTGATGAACAGCCCCAC
CAGACAGTCTTTGGCTATAAATGTTGCATACAGATGTTGCTTGTAGATTCTGGCTGTAGGACTATTCCTGCCAGGTTCAG
TGGGTATCACTGACCCCTGTGAGACTGGCAACTTCAGAGTACACACAGTCATGACCCTGGAACAGCAGGACATGGTCTAC
TACACAGCTCAGACTTTGGTCCAAAGCCTTTCACATGGTGGCTGTAGAAAGATCCTTGGCCAGGAGGGTGATGCCAGCTA
TCTTGCTTCTGAAATATCTACCTGGGATGGAGTGATAATGGCAACTTCAGAAAAGGTTTATGAGAAGCCACCAGAGAAG

Alignment

ORF - retro_tsyr_1745 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.04 %
• Parental protein coverage: 60.17 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SEVLTMLTNETGFEISSSDATVKILITTVPPNLRKLDPELHLDIKVLQSALAAIRHARWFEENASQSTVK
          SEV.TML..ETGFE.SSSDATV.ILIT..PP...KLDPELHLDIKVL..ALAA.RHARW.EENASQ.TV.
Retrocopy SEVWTMLASETGFEMSSSDATVTILITRMPPST*KLDPELHLDIKVLKRALAAMRHARWLEENASQFTVE

Parental  VLIRLLKDLRIRFPGFEPLTPWILDLLGHYAVMNNPTRQPLALNVAYRRCLQILAAGLFLPGSVGITDPC
          VLIRLL.DLRIRF.GFEPLTPWIL.LLGHYAVMN.PTRQ.LA.NVAYR.CL.ILA.GLFLPGSVGITDPC
Retrocopy VLIRLLQDLRIRFSGFEPLTPWILYLLGHYAVMNSPTRQSLAINVAYRCCL*ILAVGLFLPGSVGITDPC

Parental  ESGNFRVHTVMTLEQQDMVCYTAQTLVRILSHGGFRKILGQEGDASYLASEISTWDGVIVTPSEKAYEKP
          E.GNFRVHTVMTLEQQDMV.YTAQTLV..LSHGG.RKILGQEGDASYLASEISTWDGVI...SEK.YEKP
Retrocopy ETGNFRVHTVMTLEQQDMVYYTAQTLVQSLSHGGCRKILGQEGDASYLASEISTWDGVIMATSEKVYEKP

Parental  PEK
          PEK
Retrocopy PEK

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_1745 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 8 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000143621	2 retrocopies	retro_hsap_1405, retro_hsap_2654,
Macropus eugenii	ENSMEUG00000003651	1 retrocopy	retro_meug_1174,
Microcebus murinus	ENSMICG00000013730	1 retrocopy	retro_mmur_206,
Myotis lucifugus	ENSMLUG00000001847	3 retrocopies	retro_mluc_1046, retro_mluc_217, retro_mluc_2402,
Oryctolagus cuniculus	ENSOCUG00000005430	1 retrocopy	retro_ocun_1216,
Pongo abelii	ENSPPYG00000000800	1 retrocopy	retro_pabe_2318,
Ictidomys tridecemlineatus	ENSSTOG00000000667	1 retrocopy	retro_itri_130,
Tarsius syrichta	ENSTSYG00000012061	3 retrocopies	retro_tsyr_1448, retro_tsyr_1745 , retro_tsyr_496,