RetrogeneDB ID: retro_ogar_2784

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873664.1:4402..5424(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000031072
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: POGK
• Ensembl ID: ENSOGAG00000007615
• Aliases: None
• Description: pogo transposable element with KRAB domain [Source:HGNC Symbol;Acc:18800]

Sequence

>retro_ogar_2784
ATGGAGCCCACTGCCTACCCTCTCAATTTGACCCTGAAAGAAGAGAAAGAAGAAGAGATTCAGAGCAGGGAACTGGAGGA
TGGCCCTGCAGATTTGCAGAAAGTACAAATCTGCTCAGAGAGTGGATGCGTACTAGCCCTGTTTGATGAAGTGGCCATAT
ATTTTTCTGATGAAGAGTGGGAAGTTTTGACAGAGCAACAAAAGGCTCTCTACCGGGAAGTCATGAGGATGAATTATGAA
ACTGTCCTATCCCTCGAATTCCCATTCCCTAAGCTAGACATGATCACTTGGTTGGAAGGAGAGGAGTCGTCTCAGAATTC
TGACGAGTGGCAGCTCCAAGGAATAGGAACCTTTGCAGAAAACGAAGAATCTGAGGTAAAGCTTCCAGGTTGGGCAAGCC
TAGTGAATGCTCCTCCCAGTTTGCTCAGCCTCAGCACCTCAACAGTTTTGGCCTCTATCTGCCTTGGGACATCACAGAGC
TGCCAGAGTGGAGCGAGGGGTACCCCTTCTACTTGGCCATGGGCTTCCCAGGGTATAACCTCTTCACCAACTACATAGCT
GGGAAGTTTCAGTTCAGCCACAGCATGCACTGCAGTTATGATGCAGGGTTCAAGTTAATGGTGGTGGAATATGCTGAGAG
CACCAACAACTGCCAGGCTGCCAAGCAGTCTGGAGTATGAGAGAAAAATGTTGGAGACTGGTGCAAAGTGAAGCCTCAGC
TCCCAAATGCCCATGCCATGAGGCAGGCCTTCTGAGGCCCCAAGAATGGGAGGTTTGCTCTGGTGGACCAGCATGTGGCA
GAGTATGTCAGATACATGCAGACCAAAGGGGACCCAATCACCAGGGAGGCGATGCAGCTAAAAGCCCTTGAAATCACCCA
GGAAATGAACATTCCAGAGAAAGGATTCAAGGCAAGCTTGGGTTTGTGTCAAAGAATGATGAGAAGGTATGACCTGTCTT
TGAGGTACAAAGTGCCCGTGCCCTAGTGCCTGCCAGAAGACCTGACTGAGAAAATTGTCACC

Alignment

ORF - retro_ogar_2784 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.71 %
• Parental protein coverage: 56.07 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MEATAYPLNLTLKEEKEEEEIQRGELEDGPADMQKVRICSESGWVPALFDEVAIYFSDEEWEVLTEQQKA
          ME.TAYPLNLTLKEEKEEE.IQ..ELEDGPAD.QKV.ICSESG.V.ALFDEVAIYFSDEEWEVLTEQQKA
Retrocopy MEPTAYPLNLTLKEEKEEE-IQSRELEDGPADLQKVQICSESGCVLALFDEVAIYFSDEEWEVLTEQQKA

Parental  LYREVMRMNYETVLSLEFPFPKPDMITRLEGEEESQNSDEWQLQGGGTFAENEESDVKPPDWASPVNA-A
          LYREVMRMNYETVLSLEFPFPK.DMIT.LEGEE.SQNSDEWQLQG.GTFAENEES.VK.P.WAS.VNA..
Retrocopy LYREVMRMNYETVLSLEFPFPKLDMITWLEGEESSQNSDEWQLQGIGTFAENEESEVKLPGWASLVNA<S

Parental  SQFAQPQHLDSFSLRLPRDITELPEWNEGYPFYMAMGFPGYDLSADDIAGKFQFSRGMRRSYDAGFKLMV
          SQFAQPQHL.SF.L.LP.DITELPEW.EGYPFY.AMGFPGY.L....IAGKFQFS..M..SYDAGFKLMV
Retrocopy SQFAQPQHLNSFGLYLPWDITELPEWSEGYPFYLAMGFPGYNLFTNYIAGKFQFSHSMHCSYDAGFKLMV

Parental  VEYAESTNNCQAAKQFGVLEKNVRDWRKVKPQLQNAHAMRRAFRGPKNGRFALVDQRVAEYVRYMQAKGD
          VEYAESTNNCQAAKQ.GV.EKNV.DW.KVKPQL.NAHAMR.AF.GPKNGRFALVDQ.VAEYVRYMQ.KGD
Retrocopy VEYAESTNNCQAAKQSGV*EKNVGDWCKVKPQLPNAHAMRQAF*GPKNGRFALVDQHVAEYVRYMQTKGD

Parental  PITREAMQLKALEIAQEMNIPEKGFKASLGWCRRMMRRYDLSLRHKVPVPQHLPEDLTEKLVT
          PITREAMQLKALEI.QEMNIPEKGFKASLG.C.RMMRRYDLSLR.KVPVP..LPEDLTEK.VT
Retrocopy PITREAMQLKALEITQEMNIPEKGFKASLGLCQRMMRRYDLSLRYKVPVP*CLPEDLTEKIVT

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Otolemur garnettii was not studied using RNA-Seq expression data.

ChIP-Seq

Otolemur garnettii was not studied using ChIP-Seq data.

EST

Otolemur garnettii was not studied using EST data.

TSS

Otolemur garnettii was not studied using FANTOM5 data.

Lab

retro_ogar_2784 was not experimentally validated.

Homology

Retrocopy orthology:

Otolemur garnettii 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 7 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000033914	1 retrocopy	retro_cjac_2779,
Dipodomys ordii	ENSDORG00000006822	1 retrocopy	retro_dord_612,
Erinaceus europaeus	ENSEEUG00000014393	1 retrocopy	retro_eeur_21,
Latimeria chalumnae	ENSLACG00000014539	1 retrocopy	retro_lcha_56,
Mus musculus	ENSMUSG00000040596	1 retrocopy	retro_mmus_2572,
Otolemur garnettii	ENSOGAG00000007615	1 retrocopy	retro_ogar_2784 ,
Tarsius syrichta	ENSTSYG00000011078	1 retrocopy	retro_tsyr_1983,