RetrogeneDB ID: retro_ogar_3467

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873866.1:113072..113580(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SRSF7
• Ensembl ID: ENSOGAG00000010169
• Aliases: None
• Description: serine/arginine-rich splicing factor 7 [Source:HGNC Symbol;Acc:10789]

Sequence

>retro_ogar_3467
GACGGGAAGGTGGTTTGTGTTTCTTGAGTGAGGGTTGAACTACAACAGGCATGCCAGGGCCATCACGTTTTGATAGACAG
CCTGCCTGACGTCCCTTTGATCCCAATGATAGATGCTGTGATGCTGAAAAGGGACAGTATGCTCATGATTGTCATTCCTA
CAGCCAGAGAAGGAGAATCAGGTCAAGGTCTAGATCACTTTCTCCATCCAGAGGAATAAGATAGTCTCACTCTCCCAGCA
GAAGCAGAGGATAGAGGTCAAGATCAGCATCTCTTCCACCATCTAGATCTGTGTCTCTTCGTAGATCAAGATCAGCTTCA
CTCAGTCTAAAAGATCTAGGACTGGTTCTATAAAAGGATGGAGGTAGTTACAACCCCATTCAAGGTCAAGATCCAGGTGT
CTTTCCTGAACAATGAGACACCAATCAACGTCCAGATCTCTATTTATGAAAAGAAGTCTTTCCCCATCTGGAAGTCGGCC
CAGAAGTGCGAATTCTGAATGAACGGAC

Alignment

ORF - retro_ogar_3467 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.25 %
• Parental protein coverage: 72.31 %
• Number of stop codons detected: 7
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  DGKVICGSRVRVEL-STGMPRRSRFDRPPARRPFDPNDRCYECGEKGHYAYDCHRYSRRRRSSLKNRSRS
          DGKV.C.S.VRVEL..TGMP..SRFDR.PA.RPFDPNDRC....EKG.YA.DCH.YS.RR......RSRS
Retrocopy DGKVVCVS*VRVEL<TTGMPGPSRFDRQPA*RPFDPNDRCCDA-EKGQYAHDCHSYSQRR----RIRSRS

Parental  RSHSRSRGRRYSRSRSRSRGRRSRSASPRRSRSVSLRRSR--SASLR-RSRSGSIKGSRYFQSRSRSRSR
          RS.S.SRG.R.S.S.SRSRG.RSRSAS...SRSVSLRRSR..S.SL..RSR.GSIKG.R..Q..SRSRSR
Retrocopy RSLSPSRGIR*SHSPSRSRG*RSRSASLPPSRSVSLRRSRSASLSLK<RSRTGSIKGWR*LQPHSRSRSR

Parental  SRSLSRPRSSRSKSRSPSPKRSRSPSGSPRRSASPERMD
          ...LS......S.SRS...KRS.SPSGS..RSA..E..D
Retrocopy --CLS*TMRHQSTSRSLFMKRSLSPSGSRPRSANSE*TD

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_3467 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 14 parental genes, and 32 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000015988	1 retrocopy	retro_amel_1025,
Canis familiaris	ENSCAFG00000029620	1 retrocopy	retro_cfam_652,
Dasypus novemcinctus	ENSDNOG00000007821	2 retrocopies	retro_dnov_317, retro_dnov_829,
Macropus eugenii	ENSMEUG00000016459	1 retrocopy	retro_meug_1048,
Myotis lucifugus	ENSMLUG00000009536	2 retrocopies	retro_mluc_2005, retro_mluc_972,
Monodelphis domestica	ENSMODG00000008669	1 retrocopy	retro_mdom_289,
Mus musculus	ENSMUSG00000024097	1 retrocopy	retro_mmus_3288,
Otolemur garnettii	ENSOGAG00000000502	6 retrocopies	retro_ogar_1850, retro_ogar_1959, retro_ogar_2131, retro_ogar_2783, retro_ogar_597, retro_ogar_803,
Otolemur garnettii	ENSOGAG00000003852	1 retrocopy	retro_ogar_2328,
Otolemur garnettii	ENSOGAG00000010169	2 retrocopies	retro_ogar_3467 , retro_ogar_3481,
Otolemur garnettii	ENSOGAG00000015515	1 retrocopy	retro_ogar_2205,
Otolemur garnettii	ENSOGAG00000025950	1 retrocopy	retro_ogar_2848,
Rattus norvegicus	ENSRNOG00000027360	11 retrocopies	retro_rnor_1535, retro_rnor_1977, retro_rnor_1984, retro_rnor_2419, retro_rnor_2420, retro_rnor_2421, retro_rnor_2495, retro_rnor_2501, retro_rnor_2502, retro_rnor_2503, retro_rnor_478,
Sarcophilus harrisii	ENSSHAG00000015970	1 retrocopy	retro_shar_72,