RetrogeneDB ID: retro_ttru_1915

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_98548:21287..22229(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BLMH
• Ensembl ID: ENSTTRG00000016341
• Aliases: None
• Description: bleomycin hydrolase [Source:HGNC Symbol;Acc:1059]

Sequence

>retro_ttru_1915
GCAAATAATGGAGGATAATGGGATATGCTTGTCAATATTGTTGAAAAATATGGTGTTATTGCTAAGTGCTTCCCTGAATC
TTATACAACAGAGGCAACCGGAAGGATGAACGATATTCTGAATCACAAGATGAGAGAATTCTGTATACGACTACGGAACC
TGGTATACAACAGCACAACCAAAGGAGAAATCTCAGCCACACAGGATACCACGATGGAGGAGATGTGCAGAGTGGTGTGC
ATCTATCTGGGTAATCCACCAGAGACGTTCGCCTGGGAGTATCAAGACAAAGATAAAAACTATCAAAAGATTGGCCCCAT
AACACCCTTGAAGTTTTACAGGGAACATGTCAAGCCACTCTTCAATATGGAAGATAAGATTTGTTTAGTGAATGACCCTC
GGCCCCAGCACAAGTACAATAAACTTTACACAGTGGACTACTTAAGCAATATGGTTGGAGGGAGAAAAACTCTATATAAC
AACCAGCCCATTGACTTATTGCAGAAGATGGTTGCGGCCTCCATCAAAGATGGAGAGGCTGTGTGGTTTGGCTGTGATGT
TGGAAAACACTTCAATGGCAAGTTGGGCCTCAGTGACATGAATGTCTATGACCTTGAGTTAGTGTTTGGTGTCTCCATGA
AGAACATGAATAAAGCTGAGAGGCTGACTTTTGGTGAGTCACTTATGACCCACGCCGTGACATTCACTGCTGTCTCAGAA
AAGGATGATTAGGAGGATGCTTTTGTGAAATGGAGAGTGGAAAATTTGTGGGGTGAAGACCATGGCCACAAACGTTACCT
GTGCATGACAGATGAGTGGTTCTCTGAATATGTCTACGAAGTGGTGTTGGACAGGAAGCATGTCCCTGAAGAGGTGCTAG
CTGTACTAGAGCAGGAACCCATTGTCCTGCCAGCCTGGGACCCCATGGGGGCTTTGGCCGAG

Alignment

ORF - retro_ttru_1915 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.11 %
• Parental protein coverage: 59.89 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ANDGGQWDMLVNIVEKYGVIPKKCFPESYTTEATRRMNDILNHKMREFCIRLRNLVHSGATKGEISATQD
          AN.GG.WDMLVNIVEKYGVI.K.CFPESYTTEAT.RMNDILNHKMREFCIRLRNLV....TKGEISATQD
Retrocopy ANNGG*WDMLVNIVEKYGVIAK-CFPESYTTEATGRMNDILNHKMREFCIRLRNLVYNSTTKGEISATQD

Parental  AMMEEIFRVVCICLGNPPETFTWEYRDKDKNYQKIGPITPLKFYKEHVKPLFNMEDKICLVNDPRPHHKY
          ..MEE..RVVCI.LGNPPETF.WEY.DKDKNYQKIGPITPLKFY.EHVKPLFNMEDKICLVNDPRP.HKY
Retrocopy TTMEEMCRVVCIYLGNPPETFAWEYQDKDKNYQKIGPITPLKFYREHVKPLFNMEDKICLVNDPRPQHKY

Parental  SKLYTVDYLSNMVGGRKTLYNNQPIDLLKKMVAASIKDGEAVWFGCDVGKHFSGKLGLSDMNVYDHELVF
          .KLYTVDYLSNMVGGRKTLYNNQPIDLL.KMVAASIKDGEAVWFGCDVGKHF.GKLGLSDMNVYD.ELVF
Retrocopy NKLYTVDYLSNMVGGRKTLYNNQPIDLLQKMVAASIKDGEAVWFGCDVGKHFNGKLGLSDMNVYDLELVF

Parental  GVSMKNMNKAERLTFGESLMTHAMTFTAVSEKDDQEGAFVKWRVENSWGEDHGHKGYLCMTDEWFSEYVY
          GVSMKNMNKAERLTFGESLMTHA.TFTAVSEKDD.E.AFVKWRVEN.WGEDHGHK.YLCMTDEWFSEYVY
Retrocopy GVSMKNMNKAERLTFGESLMTHAVTFTAVSEKDD*EDAFVKWRVENLWGEDHGHKRYLCMTDEWFSEYVY

Parental  EVVVDRKHVPEEVLAVLEQEPIVLPAWDPMGALAE
          EVV.DRKHVPEEVLAVLEQEPIVLPAWDPMGALAE
Retrocopy EVVLDRKHVPEEVLAVLEQEPIVLPAWDPMGALAE

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_1915 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1915 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 7 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000021370	1 retrocopy	retro_btau_1510,
Callithrix jacchus	ENSCJAG00000013781	1 retrocopy	retro_cjac_2998,
Cavia porcellus	ENSCPOG00000005048	1 retrocopy	retro_cpor_896,
Macropus eugenii	ENSMEUG00000008938	1 retrocopy	retro_meug_2120,
Rattus norvegicus	ENSRNOG00000003563	1 retrocopy	retro_rnor_566,
Tursiops truncatus	ENSTTRG00000016341	1 retrocopy	retro_ttru_1915 ,
Vicugna pacos	ENSVPAG00000003571	1 retrocopy	retro_vpac_74,