RetrogeneDB ID: retro_ttru_1786

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_91510:58650..59277(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SRSF6
• Ensembl ID: ENSTTRG00000015410
• Aliases: None
• Description: serine/arginine-rich splicing factor 6 [Source:HGNC Symbol;Acc:10788]

Sequence

>retro_ttru_1786
GGAGGCGGATACGGCAGTCGGAGAACCTCTGGCAGAAGTGAATCTGGACCACCTGTACGCGCAGAATTCAGGCTTATTGT
AGAACACTTTTCTAGTCTTTGCAGTTGGCGAGATTTAAAGGATTTCATGAGACGAGCAGGTGAAGTAACCTATGCGGATG
ATCACGAAGAACGCACAAATGAAGGCGTCAGTGAGTTTCGCTCCTACTCGGACATGAAGCGTGCTTTGGATAAGCTGGAC
GGTACGGAAATCAATGGGAGAAATATTAGACTAAAGAAGATAAACCACGAACACCACAGGCGGTCTTATTCTGGAAGCAG
ATCAAGGTCACGGACTAGAAGAAGGTCACGAAGTAGAAGTCGTAGGAGCAGCCGCAGTAGATCTCGAAGTATCTCAAAAA
GTTGCTCCCGGTCCAGGTCTCGGAGCAAAGGTCGATCACGTTCTCGTTCAAAAGGCAGGAAATCTAGATCAAAAAGCAAA
TCTAAACCTAAGTCTGATCGAGGCTCCCGTTTGCGCTTTCGGAGCAGATCGAAGGATGAATATGAGAAGTTTCGAAGCAG
GTCTCGTTCTCCATCTCTTTCCCCCAAAGAAAATGGGGAAGGTGATATAAAGTCAAAACCTAGATCA

Alignment

ORF - retro_ttru_1786 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.52 %
• Parental protein coverage: 81.08 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GGGYSSRRTSGRDKYGPPVRTEFRLIVENLSSRCSWQDLKDFMRQAGEVTYADAHKERTNEGVIEFRSYS
          GGGY.SRRTSGR...GPPVR.EFRLIVE..SS.CSW.DLKDFMR.AGEVTYAD.H.ERTNEGV.EFRSYS
Retrocopy GGGYGSRRTSGRSESGPPVRAEFRLIVEHFSSLCSWRDLKDFMRRAGEVTYADDHEERTNEGVSEFRSYS

Parental  DMKRALDKLDGTEINGRNIRLIEDKPRTSHRRSYSGSRSRSRSRRRSRSRSRRSSRSRSRSVSKSRSRSR
          DMKRALDKLDGTEINGRNIRL........HRRSYSGSR.............RRSSRSRSRS.SKS.SRSR
Retrocopy DMKRALDKLDGTEINGRNIRLKKIN-HEHHRRSYSGSRXXXXXXXXXXXXXRRSSRSRSRSISKSCSRSR

Parental  SRSKGRSRSRSKGRKSRSKSKSKPKSDRGSRSRSRSRSKDEYEKSRSRSRSRSRSPKENGKGDIKSKSRS
          SRSKGRSRSRSKGRKSRSKSKSKPKSDRGSR.R.RSRSKDEYEK.RSRSRS.S.SPKENG.GDIKSK.RS
Retrocopy SRSKGRSRSRSKGRKSRSKSKSKPKSDRGSRLRFRSRSKDEYEKFRSRSRSPSLSPKENGEGDIKSKPRS

Legend:

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

Expression

RNA-Seq

Tursiops truncatus was not studied using RNA-Seq expression data.

ChIP-Seq

Tursiops truncatus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ttru_1786 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1786 was not experimentally validated.

Homology

Retrocopy orthology:

Tursiops truncatus 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 12 parental genes, and 23 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000002061	1 retrocopy	retro_acar_191,
Echinops telfairi	ENSETEG00000006221	1 retrocopy	retro_etel_1261,
Homo sapiens	ENSG00000124193	1 retrocopy	retro_hsap_1809,
Gorilla gorilla	ENSGGOG00000009808	1 retrocopy	retro_ggor_2176,
Monodelphis domestica	ENSMODG00000003107	1 retrocopy	retro_mdom_697,
Nomascus leucogenys	ENSNLEG00000006524	1 retrocopy	retro_nleu_1294,
Oryctolagus cuniculus	ENSOCUG00000009785	1 retrocopy	retro_ocun_312,
Pongo abelii	ENSPPYG00000011019	1 retrocopy	retro_pabe_1483,
Pan troglodytes	ENSPTRG00000013506	1 retrocopy	retro_ptro_3057,
Rattus norvegicus	ENSRNOG00000006380	1 retrocopy	retro_rnor_1752,
Tursiops truncatus	ENSTTRG00000013447	11 retrocopies	retro_ttru_105, retro_ttru_1195, retro_ttru_1577, retro_ttru_1628, retro_ttru_1639, retro_ttru_1653, retro_ttru_1677, retro_ttru_1731, retro_ttru_1892, retro_ttru_610, retro_ttru_916,
Tursiops truncatus	ENSTTRG00000015410	2 retrocopies	retro_ttru_1786 , retro_ttru_1787,