RetrogeneDB ID: retro_ttru_1561

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_116367:15268..15861(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RBMX2
• Ensembl ID: ENSTTRG00000016210
• Aliases: None
• Description: RNA binding motif protein, X-linked 2 [Source:HGNC Symbol;Acc:24282]

Sequence

>retro_ttru_1561
GAGATGAACCTGTTAACCAAAGTGCAGCTGGTTGACAAGCTGAATGAATACGAGGCTGGTACTATGGTGATAGCTGAGGC
ATCATGGCACTCCGAGTACAAGGACAGTGCCTGGATCTTCCTGGGAGGCCTTTCTTATGAATTGACTGAAGGAGATAGCC
TCTGTGTATTCTCCCAGTACTGGGAGATTGTTAGCATTATTCTCGTGCAGGACAGGAAGACAGGGAAGTCTAAAGGATTC
TTCTTTATCTTCTATGAGGACCAGAGGAGTACAAGTTTGACCATTGACAATTTTAATGGAATCAAGATCAAGGGAAGAGT
TATCCGAGTCAACCACATACCTAGCTACCATCCCGTCCCCCTCAGTCCTCAGAGGATGCAGATGATGCCACCAGAAAGCT
CTGGGAGAGGGGCTATGGGGCTCAGATCCCCTTGTCTAGTTCATCTGAAAGCTTGGATGATGAGGCACTCTCAGAATGGC
ACAAATGGGAAAAACAGAGAAGAAAGAATATCAAAGTGAATACTGATATACAAGTTAAAGATGAAGAGGAACAAATAAGC
CATGGTCCTTGCCAGCCAGAGGCCAGATTTAAA

Alignment

ORF - retro_ttru_1561 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.26 %
• Parental protein coverage: 57.57 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  EMNPLTKVKLINELNEREVQLGVAEKVSWHSEYKDSAWIFLGGLPYELTEGDIICVFSQYGEIVNINLVR
          EMN.LTKV.L...LNE.E....V....SWHSEYKDSAWIFLGGL.YELTEGD..CVFSQY.EIV.I.LV.
Retrocopy EMNLLTKVQLVDKLNEYEAGTMVIAEASWHSEYKDSAWIFLGGLSYELTEGDSLCVFSQYWEIVSIILVQ

Parental  DKKTGKSKGFCFLCYEDQRSTILAVDNFNGIKIKGRTIRVDHVSNYR-APKDSEEMDDVTRELQERGC-G
          D.KTGKSKGF.F..YEDQRST.L..DNFNGIKIKGR.IRV.H...Y...P.....M.....E...RG..G
Retrocopy DRKTGKSKGFFFIFYEDQRSTSLTIDNFNGIKIKGRVIRVNHIPSYHPVPLSPQRMQMMPPESSGRGAMG

Parental  AHTPSL-NSSEGSEDGKPTKKHK--KXXXXXXKERKEKEKSDQEVQAEQPASSSSPRSK
          ...P.L..SSE...D......HK..K......K........D.E.Q..........R.K
Retrocopy LRSPCL<SSSESLDDEALSEWHKWEKQRRKNIKVNTDIQVKDEEEQISHGPCQPEARFK

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_1561 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1561 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 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Myotis lucifugus	ENSMLUG00000017095	1 retrocopy	retro_mluc_310,
Oryctolagus cuniculus	ENSOCUG00000011809	1 retrocopy	retro_ocun_106,
Pteropus vampyrus	ENSPVAG00000004425	1 retrocopy	retro_pvam_1404,
Sarcophilus harrisii	ENSSHAG00000016412	1 retrocopy	retro_shar_2,
Tursiops truncatus	ENSTTRG00000013556	1 retrocopy	retro_ttru_1363,
Tursiops truncatus	ENSTTRG00000016210	1 retrocopy	retro_ttru_1561 ,