RetrogeneDB ID: retro_tsyr_1448

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_445255:555..1224(-)
• 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_1448
AGTTCTTCTGATGCTACGGTGACAATTCTTATTACAAGAATGCCACCCAGTACCTGAAAACTGGACCCAGAGCTTCATTT
GGATATCAAGGTGTTGAAGAGGGCCTTAGCCGCTATGCGACATGCCCGCTGGTTGGAGGAAAATGCTTCTCAGTTCACAG
TTGAAGTTCTCATCAGACTGTTGCAGGACTTGAGGATTCGTTTTTCTGGCTTTGAGCCCCTCACACCCTGGATTCTGTAC
CTACTTGGTCATTATGCTGTGATGAACAGCCCCACCAGACAGTCTTTGGCTATAAATGTTGCATACAGATGTTGCTTGTA
GATTCTGGCTGTAGGACTATTCCTGCCAGGTTCAGTGGGTATCACTGACCCCTGTGAGACTGGCAACTTCAGAGTACACA
CAGTCATGACCCTGGAACAGCAGGACATGGTCTACTACACAGCTCAGACTTTGGTCCAAAGCCTTTCACATGGTGGCTGT
AGAAAGATCCTTGGCCAGGAGGGTGATGCCAGCTATCTTGCTTCTGAAATATCTACCTGGGATGGAGTGATAATGACACC
TTCAGAAAAGGTTTATGAGAAGCCACCAGAGAAGGAAGGAGAGGACGAGGAGGAGGATACAGAAGAGCCACCTCAGGGAG
AGGAAGAGGAAAGCGTGGAAACTCAGGAG

Alignment

ORF - retro_tsyr_1448 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.71 %
• Parental protein coverage: 63.28 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SSSDATVKILITTVPPNLRKLDPELHLDIKVLQSALAAIRHARWFEENASQSTVKVLIRLLKDLRIRFPG
          SSSDATV.ILIT..PP...KLDPELHLDIKVL..ALAA.RHARW.EENASQ.TV.VLIRLL.DLRIRF.G
Retrocopy SSSDATVTILITRMPPST*KLDPELHLDIKVLKRALAAMRHARWLEENASQFTVEVLIRLLQDLRIRFSG

Parental  FEPLTPWILDLLGHYAVMNNPTRQPLALNVAYRRCLQILAAGLFLPGSVGITDPCESGNFRVHTVMTLEQ
          FEPLTPWIL.LLGHYAVMN.PTRQ.LA.NVAYR.CL.ILA.GLFLPGSVGITDPCE.GNFRVHTVMTLEQ
Retrocopy FEPLTPWILYLLGHYAVMNSPTRQSLAINVAYRCCL*ILAVGLFLPGSVGITDPCETGNFRVHTVMTLEQ

Parental  QDMVCYTAQTLVRILSHGGFRKILGQEGDASYLASEISTWDGVIVTPSEKAYEKPPEKKEGEEEEENTEE
          QDMV.YTAQTLV..LSHGG.RKILGQEGDASYLASEISTWDGVI.TPSEK.YEKPPE.KEGE.EEE.TEE
Retrocopy QDMVYYTAQTLVQSLSHGGCRKILGQEGDASYLASEISTWDGVIMTPSEKVYEKPPE-KEGEDEEEDTEE

Parental  PPQGEEEESMETQE
          PPQGEEEES.ETQE
Retrocopy PPQGEEEESVETQE

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_1448 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,