RetrogeneDB ID: retro_ttru_126

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1302:247097..248375(-)
• Located in intron of: ENSTTRG00000013660

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTTRG00000013287
• Aliases: None
• Description: None

Sequence

>retro_ttru_126
TGCCAGAAGTTAGTGGAGAATTGTAGGAGAGCCGACTTAGAAGTTAAAACGCCTGATCAACTAATTTAACATTACCGATT
GTGTGCCAAACACTTTGAGACTTATATGATCCGTAGAACTAGTCCTTACAGGGCAGTTCTTCGAGATAATGCAATACCAA
CAATATTTGATCTTACCAACCATTTGAATAATCCACACAGACACAGAAAAAACGAATAAAAGAATTGAGTGAAGATGAAA
TCAGGACACTGAAACAGAAGAAAATTGATGAAACTTCTGAACAGGAACCAAAACATAAGGAAATAAACAACAGCAATGCT
CAGGACCCCAGTGCAGAAGAAGGGGGTGAAGAGCAGGATGAAGACATTTTACCTTTAACCCTTGAAGAGAAGGAAAACAA
AGAATACTTAAAATCTTTATTTGAAATTTTAATTCTTATGGGGAAACAGAACATACCTCTGGATGGACATGAAGCTGATG
AAATCCCAGAAGGTCTCTTTACTCCTGATGACCTTCAGGCACTGCTGGAGTGCCGGATCAGTTCTGGTGAAGAGGTTCTG
AGAAAGCGCTTTGAGACAATGGCAGTTAACACATTGTTCTGTTTGAAAACACAGCAAAAACAGATGCTAGAGAGCTGTGA
GAGCTGCATTCGGGAAGAAACCCTCAGGGAAGTGAGACTCTCACTTCTTTTCCATCGTCACTGATGATGTGGTGGACATA
GCAGAGGAAAAGCACCTGCCTGTGTTGGTGAGGTTTGTTGACGAAGCTCACAACCTGAGAGAGGAATTTGTGGGCTTCCT
GCCTTATGAAGCCGATGCAGAAATTTTGACTGTGAAATTTCACGCTACTATAACTGAGAAGTGGGGATTAAACATGGAGT
ACTGTCGTGGCCAGGCTTACATTGTGTCCAGTGGATTTTCTTCCAAAGTGAAAGTTGTTGCTTCTAGACTTTTAGAGAAA
TATCCCCAAGGTATCTACACACTCTGCTCTTCCTGTGCCTTAAATATATGGTTGGCAAAATCACTGCCTGTTATGGGAGT
ATCTGTCGCATTAGGAACAATTGAGGAAGTTTGTTCTTTTTTCCATCTATCACCACAACTGCTTTTAGAGCTTGACAATG
TAATTTCTGTCCTCTTTCAGAACAGTGAAGAAAGGGGCAAAGAACTGAAGGAAATTTGCTATTCTCAGTGGACAGGCAGG
CATGATGCGTTTGGAATCTTAGTGGACCTCCTACCAGCACTTGTTTCGTGTTTAGATGGTATAATTAGTGACACAAAT

Alignment

ORF - retro_ttru_126 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.28 %
• Parental protein coverage: 58.33 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  CQKWVENCRRADLEDKTPDQLNKHYRLCAKHFETSMICRTSPYRTVLRDNAIPTIFDLTSHLNNPHSRHR
          CQK.VENCRRADLE.KTPDQL..HYRLCAKHFET.MI.RTSPYR.VLRDNAIPTIFDLT.HLNNPH....
Retrocopy CQKLVENCRRADLEVKTPDQLI*HYRLCAKHFETYMIRRTSPYRAVLRDNAIPTIFDLTNHLNNPHRHRK

Parental  -KRIKELSEDEIRTLKQKKIDETSEQEPKHKEINNSNAQNPSAEEGGEEQDEDILPLTLEEKENKEYLKS
          .KRIKELSEDEIRTLKQKKIDETSEQEPKHKEINNSNAQ.PSAEEGGEEQDEDILPLTLEEKENKEYLKS
Retrocopy <KRIKELSEDEIRTLKQKKIDETSEQEPKHKEINNSNAQDPSAEEGGEEQDEDILPLTLEEKENKEYLKS

Parental  LFEILILMGKQNIPLDGHEADEIPEGLFTPDNFQALLECRINSGEEVLRKRFETTAVNTLFCSKTQQKQM
          LFEILILMGKQNIPLDGHEADEIPEGLFTPD..QALLECRI.SGEEVLRKRFET.AVNTLFC.KTQQKQM
Retrocopy LFEILILMGKQNIPLDGHEADEIPEGLFTPDDLQALLECRISSGEEVLRKRFETMAVNTLFCLKTQQKQM

Parental  LEICESCIREETLREVRDSHFFS-IVTDDVVDIAGEEHLPVLVRFVDEAHNLREEFVGFLPYEADAEILA
          LE.CESCIREETLREVR.S..F.....D.V.DIA.E.HLPVLVRFVDEAHNLREEFVGFLPYEADAEIL.
Retrocopy LESCESCIREETLREVRLSLLFH>VTDDVV-DIAEEKHLPVLVRFVDEAHNLREEFVGFLPYEADAEILT

Parental  VKFHTTITEKWGLNMEYCRGQAYIVSSGFSSKMKVVASRLLEKYPQAIYTLCSSCALNMWLAKSVPVMGV
          VKFH.TITEKWGLNMEYCRGQAYIVSSGFSSK.KVVASRLLEKYPQ.IYTLCSSCALN.WLAKS.PVMGV
Retrocopy VKFHATITEKWGLNMEYCRGQAYIVSSGFSSKVKVVASRLLEKYPQGIYTLCSSCALNIWLAKSLPVMGV

Parental  SVALGTIEEVCSFFHRSPQLLLELNNVISVLFQNNEERGKELKEICHSQWTGRHDAFEILVDLLQALVLC
          SVALGTIEEVCSFFH.SPQLLLEL.NVISVLFQN.EERGKELKEIC.SQWTGRHDAF.ILVDLL.ALV.C
Retrocopy SVALGTIEEVCSFFHLSPQLLLELDNVISVLFQNSEERGKELKEICYSQWTGRHDAFGILVDLLPALVSC

Parental  LDGINSDTN
          LDGI.SDTN
Retrocopy LDGIISDTN

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_126 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_126 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 8 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000024488	1 retrocopy	retro_acar_167,
Bos taurus	ENSBTAG00000031609	2 retrocopies	retro_btau_1797, retro_btau_780,
Canis familiaris	ENSCAFG00000005274	1 retrocopy	retro_cfam_663,
Equus caballus	ENSECAG00000021982	1 retrocopy	retro_ecab_150,
Homo sapiens	ENSG00000137492	1 retrocopy	retro_hsap_4080,
Mustela putorius furo	ENSMPUG00000008784	1 retrocopy	retro_mputfur_1571,
Pan troglodytes	ENSPTRG00000004091	1 retrocopy	retro_ptro_2766,
Tursiops truncatus	ENSTTRG00000013287	1 retrocopy	retro_ttru_126 ,