RetrogeneDB ID: retro_ogar_1617

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873556.1:10154268..10155671(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000029010
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: UFSP2
• Ensembl ID: ENSOGAG00000014660
• Aliases: None
• Description: UFM1-specific peptidase 2 [Source:HGNC Symbol;Acc:25640]

Sequence

>retro_ogar_1617
GTGACCTCAAAAACTATGGATATACTCTTCAGAATAAGAGGAGGCCTTGATCTGGCTTTTCAGCTAGCTACTGCTAATGA
ACTTTTTATCAAGAAGGCACTAAAACATATGTTGTGTGATCTGTCTACCGAGCTTTCTTCAAATGCGCTTGTGTTCAGAA
TTTGCCACAGTTCAGTGTATATATGGCCCAACAGTGATATAAACACCATACCCAGAGAGCTGACTGATAGCTCTGCCTGT
AAGACCATATTGCACTTTATTCAATTTGAGCAGGAAGAAGATATAAAATGAAAATTCATGAGAAAGAAAGACAAAAAGTT
ATCAGACATGCATCAGATAGTAAATATAGATCTTATGCTGGAAATGTCAACCTCTCTGGCAGCTGTAACCCCCATCATCG
AAAGGGAAAATGGAGGACACCACTATGTTAATATGACCTTACCAGTTGATGTAGTTATATCTGTGGCTCCAGAAGAAATA
TGGGGAAAAGTTCGTAAACTTCTAGTTGATGCAATTCATAATCAACTAACTGATATGGAAAAATGCATTTTGAAATTTAT
GAAAGGAACATCTATCGTGGTCCCTGAACCACTGCACTTTTTATTACCAGGAAAAAAAAATCTTGTAACAATTTCATATC
CGTCAGGAATTCCAGATGTCAGCTTCAGGCCTATAGAAAGGAGTTACATGATCTCTTCAATCTCCGTCATGACAGACCTT
ATTTCAAAAGGTCTAATGCTTATCACTTTCCAGATGAGCCATACAAAGATGGTTACATAAGAAATCCACATATTTATCTT
AATCCACCAAACATGGAGACTGGTATGGTATATGTGGTCCAGGGCACATATAGCTTCCATCACTACATGCAGGATCGGGT
AGATGACAATGGCTGGGGCTGTGCTTACCGGTCTCTCCAGACTATCTGTTCCTGGTTCACACACCAGGGATACACAGAGC
GCTCCATTCCAACACACAGAGATATTCAGCAGGCACTAGTTGATGCCGGTGACAAACCAGCAGCATTTGTGGGATCACGG
CAATGGATCGGATCCATTGAGGTTCAGCTGGTACTAAACCAATTGATTGGTATAACTTCAAAAATACTGTTTGTCAGCCA
AGGTTCAGAAATGGCCTCTCAAGGACGGGAACTGGCTAATCATTTCCAAAGCGAAGGAACGCCAGTTATGATCGGGGGAG
GAGTTTTGGCCCACACAATACTAGGTGTTGCATGGAATGAGATAACAGGGCAGATAAAATTTCTAATTCTAGATCCACAT
TATACAGGAGCCGAAGATCTACAGGTTATTTTAGAAAAGGGCTGGTGTGGATGGAAGGGCCCAGACTTTTGGAACAAAGA
TGCTTACTATAATTTATGCCTTCCTCAGCGACCAAATATTATT

Alignment

ORF - retro_ogar_1617 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.44 %
• Parental protein coverage: 99.79 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VTSKTMDILFRIRGGLDLAFQLATANELFIKKALKHMLCDLSTELSSNALVFRICHSSVYIWPNSDINTI
          VTSKTMDILFRIRGGLDLAFQLATANELFIKKALKHMLCDLSTELSSNALVFRICHSSVYIWPNSDINTI
Retrocopy VTSKTMDILFRIRGGLDLAFQLATANELFIKKALKHMLCDLSTELSSNALVFRICHSSVYIWPNSDINTI

Parental  PRELTDSSACKTILRFIQFEQEEDIKRKFMRKKDKKLSDMHQIVNIDLMLEMSTSLAAVTPIIERENGGH
          PRELTDSSACKTIL.FIQFEQEEDIK.KFMRKKDKKLSDMHQIVNIDLMLEMSTSLAAVTPIIERENGGH
Retrocopy PRELTDSSACKTILHFIQFEQEEDIK*KFMRKKDKKLSDMHQIVNIDLMLEMSTSLAAVTPIIERENGGH

Parental  HYVNMTLPVDVVISVAPEETWGKVRKLLVDAIHNQLTDMEKCILKYMKGTSIVVPEPLHFLLPGKKNLVT
          HYVNMTLPVDVVISVAPEE.WGKVRKLLVDAIHNQLTDMEKCILK.MKGTSIVVPEPLHFLLP....LVT
Retrocopy HYVNMTLPVDVVISVAPEEIWGKVRKLLVDAIHNQLTDMEKCILKFMKGTSIVVPEPLHFLLPXXXXLVT

Parental  ISYPSGIPDG-QLQAYRKELHDLFNLPHDRPYFKRSNAYHFPDEPYKDGYIRNPHIYLNPPNMETGMVYV
          ISYPSGIPD..QLQAYRKELHDLFNL.HDRPYFKRSNAYHFPDEPYKDGYIRNPHIYLNPPNMETGMVYV
Retrocopy ISYPSGIPDV<QLQAYRKELHDLFNLRHDRPYFKRSNAYHFPDEPYKDGYIRNPHIYLNPPNMETGMVYV

Parental  VQGTYSYHHYMQDRVDDNGWGCAYRSLQTICSWFTHQGYTERSIPTHRDIQQALVDAGDKPAAFVGSRQW
          VQGTYS.HHYMQDRVDDNGWGCAYRSLQTICSWFTHQGYTERSIPTHRDIQQALVDAGDKPAAFVGSRQW
Retrocopy VQGTYSFHHYMQDRVDDNGWGCAYRSLQTICSWFTHQGYTERSIPTHRDIQQALVDAGDKPAAFVGSRQW

Parental  IGSIEVQLVLNQLIGITSKILFVSQGSEMASQGRELANHFQSEGTPVMIGGGVLAHTILGVAWNEITGQI
          IGSIEVQLVLNQLIGITSKILFVSQGSEMASQGRELANHFQSEGTPVMIGGGVLAHTILGVAWNEITGQI
Retrocopy IGSIEVQLVLNQLIGITSKILFVSQGSEMASQGRELANHFQSEGTPVMIGGGVLAHTILGVAWNEITGQI

Parental  KFLILDPHYTGAEDLQVILEKGWCGWKGPDFWNKDAYYNLCLPQRPNII
          KFLILDPHYTGAEDLQVILEKGWCGWKGPDFWNKDAYYNLCLPQRPNII
Retrocopy KFLILDPHYTGAEDLQVILEKGWCGWKGPDFWNKDAYYNLCLPQRPNII

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_1617 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000005943	1 retrocopy	retro_cjac_3122,
Monodelphis domestica	ENSMODG00000004727	1 retrocopy	retro_mdom_709,
Otolemur garnettii	ENSOGAG00000014660	1 retrocopy	retro_ogar_1617 ,