RetrogeneDB ID: retro_ogar_1519

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873550.1:9477454..9478745(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SLU7
• Ensembl ID: ENSOGAG00000012301
• Aliases: None
• Description: SLU7 splicing factor homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:16939]

Sequence

>retro_ogar_1519
GAGCTTGCGCAGCCTCAACTGATGTTTGACTATGATGGGAAGAGGGATCGCTGGAATGGCTACAATCCTGAAGAACACGT
GAAAATTGTAGAAGAATATGCCGAAGTTGATCTGGCAAAACGAACGTTGAAAACCCAGAAACTCCCAAGAAGAATTAGCC
TCAGGAGAATTAGTAGAACAGGCTAATTCTCCAAAACACCAATGGGGAAAAGAGGAACCAAATTCACAGACGGAAAAAGA
TCATAATAGTGAAGATGAGGATGAAGATAAATATGCAGATGATATTGACATACCTGGGCAGAATTTTGACTCTAAGAGAC
GAATTACTGTCCAGAAGCTCAGGATTAGAGAAGATATTGCAAAATATTTAAGGAATTTAGATCCAAGTTCTGCCTACTAT
GATCCAAAAACTAGAGCAATGAGAGAGAATCCTTATGCCAATGCTGGAAAGAACCCAGATGAAGTGAGTTATGCGGGAGA
TAACTTCGTTAGATACACAGGAGACACCATTTCAATGGCTCAGACACAGTTGTTTGCTTGGGAAGCCTATGACAAGGGTT
CTGAAGTACATCTACAGACAGATCCTACAAAACTAGAGCTGTTGTATAAGTCCTTCAAAGTCAAAAAGAAGACTTCAAAG
AACAGCAAAAAGAAAGCATCCTGGAAAAGGATGGTGGCCAAGAACATTAGGATGCCCCTCCACCTGAGTTGCTTTTAGCC
CAAACAAGACTACGTAGAGTACTCAAGACATGGGACGGTGATCAAAGGACAGGAACGGGCTGTTGCCCGTTCCAAGTACG
AGGAGGATGTGAAGATCAACAATCATACACATATCTGGGGATCCTACTGGAAAGAAGGCCAATGGGAATACAAGTGCTGT
CACTCTTTTTTCAAATATTCCTATTGTACTGGAGAAGTCGGGAAGGAGATTATTAATTCAGAGGAAAGTATTATGAATAA
TACAACTGGGAAAGAATCTATAAAGAAGCCTCAAACCCTTATGGAACTGCATCAGGAAAAACTAAAAGAGGAGAAAAAGA
AGAAAAAAAAGAAGCACTGAAAGAGCAGTTCAGATAGTGATGATGAAGAAAAGAAACCTGAAAAATTGAAAAAGGCACTG
AATGCAGAGGAAGCCCGACTTCTGCACGTCAAGGAGATCATGCAGACTGATGAGAGGAAGCGGCCTTACGACAGCATGTG
TGAAACTTGGGAACCCACAGAAGAGGAAATGGAGGCCTGAAGAATGAAACGTCAGAGGCCAGATGACCCCATGGCCTCCT
TCCTTGGACAG

Alignment

ORF - retro_ogar_1519 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.13 %
• Parental protein coverage: 74.06 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  EHVQPQLMFDYDGKRDRWNGYNPEEHMKIVEEYAKVDLAKRTLKAQKL-QEELASGKLVEQANSPKHQWG
          E..QPQLMFDYDGKRDRWNGYNPEEH.KIVEEYA.VDLAKRTLK.QKL.QEELASG.LVEQANSPKHQWG
Retrocopy ELAQPQLMFDYDGKRDRWNGYNPEEHVKIVEEYAEVDLAKRTLKTQKL>QEELASGELVEQANSPKHQWG

Parental  EEEPNSQTEKDHNSEDEDEDKYADDIDMPGQNFDSKRRITVRNLRIREDIAKYLRNLDPNSAYYDPKTRA
          .EEPNSQTEKDHNSEDEDEDKYADDID.PGQNFDSKRRITV..LRIREDIAKYLRNLDP.SAYYDPKTRA
Retrocopy KEEPNSQTEKDHNSEDEDEDKYADDIDIPGQNFDSKRRITVQKLRIREDIAKYLRNLDPSSAYYDPKTRA

Parental  MRENPYANAGKNPDEVSYAGDNFVRYTGDTISMAQTQLFAWEAYDKGSEVHLQADPTKLELLYKSFKVKK
          MRENPYANAGKNPDEVSYAGDNFVRYTGDTISMAQTQLFAWEAYDKGSEVHLQ.DPTKLELLYKSFKVKK
Retrocopy MRENPYANAGKNPDEVSYAGDNFVRYTGDTISMAQTQLFAWEAYDKGSEVHLQTDPTKLELLYKSFKVKK

Parental  -EDFKEQQKESILEKYGGQEHLDAPPPELLLAQT-EDYVEYSRHGTVIKGQERAVACSKYEEDVKINNHT
          .EDFKEQQKESILEK.GGQEH.DAP.P..LL.....DYVEYSRHGTVIKGQERAVA.SKYEEDVKINNHT
Retrocopy <EDFKEQQKESILEKDGGQEH*DAP-PPELLLAQ>QDYVEYSRHGTVIKGQERAVARSKYEEDVKINNHT

Parental  HIWGSYWKEGRWGYKCCHSFFKYSYCTGEAGKEIVNSEESIMNDTTGEESIKKPQTLMELHQEKLKEEKK
          HIWGSYWKEG.W.YKCCHSFFKYSYCTGE.GKEI.NSEESIMN.TTG.ESIKKPQTLMELH.........
Retrocopy HIWGSYWKEGQWEYKCCHSFFKYSYCTGEVGKEIINSEESIMNNTTGKESIKKPQTLMELHXXXXXXXXX

Parental  KKKKKKKKHRKSSSDSDDEEKKHEKLKKALNAEEARLLHVKEIMQIDERKRPYNSMCETREPTEEEMEAY
          .......K....S.D......K...LKKALNAEEARLLHVKEIMQ.DERKRPY.SMCET.EPTEEEMEA.
Retrocopy XXXXXH*KSSSDSDDEEKKPEK---LKKALNAEEARLLHVKEIMQTDERKRPYDSMCETWEPTEEEMEA*

Parental  RMKRQRPDDPMASFLGQ
          RMKRQRPDDPMASFLGQ
Retrocopy RMKRQRPDDPMASFLGQ

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_1519 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 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000004484	1 retrocopy	retro_cpor_883,
Dipodomys ordii	ENSDORG00000006239	3 retrocopies	retro_dord_125, retro_dord_140, retro_dord_563,
Ficedula albicollis	ENSFALG00000013473	1 retrocopy	retro_falb_12,
Myotis lucifugus	ENSMLUG00000003091	2 retrocopies	retro_mluc_2250, retro_mluc_2251,
Oryctolagus cuniculus	ENSOCUG00000011743	1 retrocopy	retro_ocun_818,
Otolemur garnettii	ENSOGAG00000012301	1 retrocopy	retro_ogar_1519 ,
Sorex araneus	ENSSARG00000012209	2 retrocopies	retro_sara_409, retro_sara_731,