RetrogeneDB ID: retro_ogar_1949

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873576.1:5324286..5324943(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SEC22A
• Ensembl ID: ENSOGAG00000012485
• Aliases: None
• Description: SEC22 vesicle trafficking protein homolog A (S. cerevisiae) [Source:HGNC Symbol;Acc:20260]

Sequence

>retro_ogar_1949
ATGTCTATGATTTTATCTGCCTCAGTCATTTGTGTCAGAGATGGACTGCCACTTTCTGCTTCTACTGATTGGGAACAAAG
CTCAGGAATGCAGGAGTGCAGAGAGTATTTTAAGATGCTCTTGAGGAAACTTTCTCAATTTCCTGATAGATGTACACTGA
AAACTGGACGTTATAACATTAATTTTATTAGCTCTCTGGGAGTGAGCTACATGATGTTGTGCCCTGAAAATTACCCAAAT
GTTCTCGCCTTCTCTTTCCTGGATGAGCTTCAGAAGGAGTTCTTTACTACTTATAACATGATGAAGACAAGTACTGCTGT
CAGACCATCCTGTTTCATTGAATTTGATAACCTCATTCAGAGGACCAAGCAGCGATACAATAATCCCAGGTCTCTTTCGA
CAAAGATAAATCTCTCTGACATGCAGATGGAAATCAAGCTGAGGCCCCCTTACCAAATTTCCATGTGTGAACTGCGGTCG
GCCAATGGAGTCATATCTGCATTTTCTGTTGACTGTAAAGGTGCTGGTAAGATTTCTTCTGCTCACCAGCGACTGGAACC
AGCAACTCTGTCAGGGATTGTGGCATTTATCCTTAGTCTTTTATGTGGAGCTCTGAATTTAATTTGAGGCTTTCATGTCA
TAGAAAGTCTCCTGCAG

Alignment

ORF - retro_ogar_1949 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.06 %
• Parental protein coverage: 71.34 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSMILSASVIRVRDGLPLSASTDYEQSSGMQECRKYFKMLSRKLSQFPDRCTLKTGRYNINFISSLGVSY
          MSMILSASVI.VRDGLPLSASTD.EQSSGMQECR.YFKML.RKLSQFPDRCTLKTGRYNINFISSLGVSY
Retrocopy MSMILSASVICVRDGLPLSASTDWEQSSGMQECREYFKMLLRKLSQFPDRCTLKTGRYNINFISSLGVSY

Parental  MMLCTENYPNVLAFSFLDELQKEFITTYNMMKTNTAVRPYCFIEFDNFIQRTKQRYNNPRSLSTKINLSD
          MMLC.ENYPNVLAFSFLDELQKEF.TTYNMMKT.TAVRP.CFIEFDN.IQRTKQRYNNPRSLSTKINLSD
Retrocopy MMLCPENYPNVLAFSFLDELQKEFFTTYNMMKTSTAVRPSCFIEFDNLIQRTKQRYNNPRSLSTKINLSD

Parental  MQMEIKLRPPYQISMCELGSANGVTSAFSVDCKGAGKISSAHQRLEPATLSGIVAFILSLLCGALNLIRG
          MQMEIKLRPPYQISMCEL.SANGV.SAFSVDCKGAGKISSAHQRLEPATLSGIVAFILSLLCGALNLI.G
Retrocopy MQMEIKLRPPYQISMCELRSANGVISAFSVDCKGAGKISSAHQRLEPATLSGIVAFILSLLCGALNLI*G

Parental  FHAIESLLQ
          FH.IESLLQ
Retrocopy FHVIESLLQ

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_1949 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.

---

Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Mustela putorius furo	ENSMPUG00000004528	1 retrocopy	retro_mputfur_1115,
Otolemur garnettii	ENSOGAG00000012485	1 retrocopy	retro_ogar_1949 ,