RetrogeneDB ID: retro_tsyr_29

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_32404:2810..4466(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTSYG00000007504
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: GK
• Ensembl ID: ENSTSYG00000008249
• Aliases: None
• Description: glycerol kinase [Source:HGNC Symbol;Acc:4289]

Sequence

>retro_tsyr_29
ATGGCAGCCCCAAAGAAACCAGTGGTGGGGCCGTTGGTGGGGTCGGTGGTCCAGGGCTCCAGCTCCACTCGCTTTCTGGT
TTTCAATTCAAAAACCTCGGAGCTCCTGAGCCATCACCAGGTGGAGCTGACGCAAGAGTTCCCCCGGGAAGGGTGGGTGG
AGCAAGACCCGAAGGAGATCCTGCAGTCTGTCTACGAATGCATGGCCAGGACGTGCGAGAAGCTCCGCGACCTGAACGTC
GACACGTCCAGCATCAAGGCCGTGGGCGTCAGCAACCAGCGAGAGACCACCGTCATCTGGGACAGGCTGACAGGGGAGCC
CCTGTACAATGCCGTGGTGTGGCTGGACCTGAGGACCCAGGCCACCGTGGAGGCCCTGAGCAAGAAGATCCCAGGGAACA
ACAACTTCGTCAAGTCCAAGACAGGCCTCCCGCTCAGCACCTACTTCAGCGCAGTGAAGCTGCGCTGGATGCTGGACAAT
GTGGTACACGTGCAGAAGGCGGTTGAGGAGGGTCGGGCCCTCTTCGGCACTGTGGACTCCTGGCTGATCTGGAGCATGAC
AGGGGGCGTCAACGGGGGCGTGCACTGCACTGATGTCACCAACGCCAGCAGGACCATGCTCTTCAACATCCACTCCCTGG
AATGGGATCAGGAGCTCTGCGACTTTTTTGAAGTTCCCATGACCATTCTCCCCAATGTCTGGAGTTCTTCGGAGATCTAC
GGCCTCATAAGAGGCGGGGTCCTGGAAGGGGTACCCATATCTGGTTGTTTGGGGGACCAGTCGGCTGCATTGGTAGGACA
GATGTGCTTACAGGAGGGACAGGCCAAAAATACATATGGAACCGGCTGCTTCCTGCTGTGCAACACAGGTCGCAAGCGCG
TGTTCTCTGAGCATGGCCTTCTGACGACAGTGGCCTACAAGCTGGGCAAGGACAAGCCCGTGTGTTACGCGCTGGAAGGC
TCTGTTGCTATCGCGGGCGCTGTGGTTCGCTGGCTGAAGGACAACCTTGGAATCATAGAGACCGCAGAAGAGATTGAAAA
ACTTGCTAAGCAGGCAGGCACTTCCTACGGCTGCTACTTTGTCCCAGCGTTTTCTGGATTGTATGCACCTTATTGGGAGC
CCAGTGCGAGAGGGATCATCTGTGGTCTGACTCAGTTTACCAACAAATGTCATATTGCTTTTGCTGCATTAGAAGCTGTT
TGTTTCCAGACCCGAGAGATTGTGGAAGCTATGAACCGTGACTGTGGAACTCCACTAAGCCATCTGCAGGTGGACGGTGG
AATGACCAACAACAGAATCCTGATGCAACTACAGGCGGATATTCTGCATGTCCCAGTTGTAAAGCCCTGCATGCCTGAGA
CCACCGCACTGGGTGCCGCCATGGCCGCAGGTGCTGCCGAAGGGGTCGGCGTCTGGAGTCTGGAGCCCGAGAGTCTGTCG
GGTGCCAGAGTGGAACGATTTGAACCGCAGATCCAGGCCTCAGAAAGTGAAAATCGTTATGCTACGTGGAAGAAAGCTGT
GAGGAAGTCAATGGGTTGGGTGACAACTCCTGTAAGTGGGGACTCGACTATCTTCTCTAGTCTGCCTTTGGGGTTTTTTA
TAGTGAGTAGCATGGTCATGCTAATTGGAGCAAGATATATCTCAGATATATCAGAG

Alignment

ORF - retro_tsyr_29 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.41 %
• Parental protein coverage: 55.48 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KAGALEGVPISGCLGDQSAALVGQMCFQDGQAKNTYGTGCFLLCNTGHKCVFSDHGLLTTVAYKLGRDKP
          ..G.LEGVPISGCLGDQSAALVGQMC.Q.GQAKNTYGTGCFLLCNTG.K.VFS.HGLLTTVAYKLG.DKP
Retrocopy RGGVLEGVPISGCLGDQSAALVGQMCLQEGQAKNTYGTGCFLLCNTGRKRVFSEHGLLTTVAYKLGKDKP

Parental  VYYALEGSVAIAGAVIRWLRDNLGIIQSSEEIEKLAKEVGTSYGCYFVPAFSGLYAPYWEPSARGIICGL
          V.YALEGSVAIAGAV.RWL.DNLGII...EEIEKLAK..GTSYGCYFVPAFSGLYAPYWEPSARGIICGL
Retrocopy VCYALEGSVAIAGAVVRWLKDNLGIIETAEEIEKLAKQAGTSYGCYFVPAFSGLYAPYWEPSARGIICGL

Parental  TQFTNKCHIAFAALEAVCFQTREILDAMNRDCGIPLSHLQVDGGMTSNKILMQLQADILYIPVVKPSMPE
          TQFTNKCHIAFAALEAVCFQTREI..AMNRDCG.PLSHLQVDGGMT.N.ILMQLQADIL..PVVKP.MPE
Retrocopy TQFTNKCHIAFAALEAVCFQTREIVEAMNRDCGTPLSHLQVDGGMTNNRILMQLQADILHVPVVKPCMPE

Parental  TTALGAAMAAGAAEGVGVWSLEPEDLSAVTMERFEPQINAEESEIRYSTWKKAVMKSMGWVTTQSPESGD
          TTALGAAMAAGAAEGVGVWSLEPE.LS....ERFEPQI.A.ESE.RY.TWKKAV.KSMGWVTT..P.SGD
Retrocopy TTALGAAMAAGAAEGVGVWSLEPESLSGARVERFEPQIQASESENRYATWKKAVRKSMGWVTT--PVSGD

Parental  PSIFCSLPLGFFIVSSMVMLIGARYISGI
          ..IF.SLPLGFFIVSSMVMLIGARYIS.I
Retrocopy STIFSSLPLGFFIVSSMVMLIGARYISDI

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_29 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 14 parental genes, and 25 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000007633	3 retrocopies	retro_cjac_125, retro_cjac_3161, retro_cjac_4035,
Cavia porcellus	ENSCPOG00000003261	2 retrocopies	retro_cpor_11, retro_cpor_20,
Echinops telfairi	ENSETEG00000008279	2 retrocopies	retro_etel_2000, retro_etel_247,
Felis catus	ENSFCAG00000004264	1 retrocopy	retro_fcat_140,
Homo sapiens	ENSG00000198814	4 retrocopies	retro_hsap_3087, retro_hsap_3120, retro_hsap_4885, retro_hsap_70,
Loxodonta africana	ENSLAFG00000007632	1 retrocopy	retro_lafr_30,
Monodelphis domestica	ENSMODG00000002417	1 retrocopy	retro_mdom_234,
Mus musculus	ENSMUSG00000025059	2 retrocopies	retro_mmus_119, retro_mmus_97,
Nomascus leucogenys	ENSNLEG00000010102	2 retrocopies	retro_nleu_1650, retro_nleu_771,
Oryctolagus cuniculus	ENSOCUG00000013023	2 retrocopies	retro_ocun_2, retro_ocun_81,
Rattus norvegicus	ENSRNOG00000034116	2 retrocopies	retro_rnor_114, retro_rnor_34,
Sarcophilus harrisii	ENSSHAG00000006470	1 retrocopy	retro_shar_35,
Ictidomys tridecemlineatus	ENSSTOG00000008732	1 retrocopy	retro_itri_1436,
Tarsius syrichta	ENSTSYG00000008249	1 retrocopy	retro_tsyr_29 ,