RetrogeneDB ID: retro_ttru_456

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_2347:577531..577951(+)
• Located in intron of: ENSTTRG00000015181

Retrocopy information

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

Parental gene information

• Parental gene symbol: RANBP1
• Ensembl ID: ENSTTRG00000008142
• Aliases: None
• Description: RAN binding protein 1 [Source:HGNC Symbol;Acc:9847]

Sequence

>retro_ttru_456
GACACCCACGAGGAGCACGACACGTCCACCGAGAATGCCGACGAGTCCAACCATGACCCTCAGTTTGAGCCCATAGTTTC
TCTTCCTGAGCAAGAAATTAAAACGCTGGAAGAAGATGAAGAGGAACTTTTTCAAATGCGGGCCAAGCTGTTCCGGGTTC
GCTTCGGAGAACCGACCTCCCGGAGGGGAAGGAGCTGGGTACAAGGCATGTCAAGCTGCTGAAGCACGAGAGAAGGGGAC
CATCCGCTTCCTCATGCGCAGGGACGAGACCCTACAGACTGCGCAACCACTGCATCACGCCGTTGATGAGCTGAAGCCGA
CGCGGGCAGTGACCGCGCCTGGGTCTGGACTACCCACGCCGACTTCGCCGGCCAGCGCCCCAAGCAGGAGCTGCCGGCCA
TCCGCTTCCTTAACGCCGAG

Alignment

ORF - retro_ttru_456 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.43 %
• Parental protein coverage: 71.94 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 7

Retrocopy - Parental Gene Alignment:

Parental  DTHEDHDTSTENADESNHDPQFEPIVSLPEQEIKTLEEDEEELFKMRAKLFR-FASEN-DLPEWKERGTG
          DTHE.HDTSTENADESNHDPQFEPIVSLPEQEIKTLEEDEEELF.MRAKLFR.FASEN.DLPE.KE.GT.
Retrocopy DTHEEHDTSTENADESNHDPQFEPIVSLPEQEIKTLEEDEEELFQMRAKLFR>FASEN>DLPEGKELGTR

Parental  DVKLLKH-KEKGTIRLLMRRDKTLKI-CA-NHYITPMM-ELKP-NAGSDRAWVWNTHADFADECPKQELL
          .VKLLKH..EKGTIR.LMRRD.TL...CA.NH.ITP.M.ELKP..AGSDRAWVW.THADFA...PKQEL.
Retrocopy HVKLLKH<REKGTIRFLMRRDETLQT<CA<NHCITPLM<ELKP<DAGSDRAWVWTTHADFAGQRPKQELP

Parental  AIRFLNAE
          AIRFLNAE
Retrocopy AIRFLNAE

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_456 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_456 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 9 parental genes, and 22 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000010749	1 retrocopy	retro_cjac_2619,
Cavia porcellus	ENSCPOG00000002962	1 retrocopy	retro_cpor_1249,
Gorilla gorilla	ENSGGOG00000000784	1 retrocopy	retro_ggor_170,
Macropus eugenii	ENSMEUG00000016620	8 retrocopies	retro_meug_1064, retro_meug_1553, retro_meug_1670, retro_meug_1795, retro_meug_272, retro_meug_422, retro_meug_657, retro_meug_753,
Monodelphis domestica	ENSMODG00000010312	5 retrocopies	retro_mdom_1290, retro_mdom_1397, retro_mdom_1406, retro_mdom_1996, retro_mdom_288,
Sarcophilus harrisii	ENSSHAG00000006873	1 retrocopy	retro_shar_9,
Ictidomys tridecemlineatus	ENSSTOG00000026840	2 retrocopies	retro_itri_1579, retro_itri_345,
Tarsius syrichta	ENSTSYG00000013573	1 retrocopy	retro_tsyr_320,
Tursiops truncatus	ENSTTRG00000008142	2 retrocopies	retro_ttru_456 , retro_ttru_890,