RetrogeneDB ID: retro_ttru_1136

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_105274:31990..32914(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BUB3
• Ensembl ID: ENSTTRG00000016194
• Aliases: None
• Description: BUB3 mitotic checkpoint protein [Source:HGNC Symbol;Acc:1151]

Sequence

>retro_ttru_1136
TCCTCGGTGAAGTTCAGCCTGAACACCTCTCAGTTCCTGTTGGTCTCCTCCTGGGACACGTCCGTGCGCCTTTACGATGT
GCCGGCCAATTCCAGGCGGCTCAAGTACCAGCACACCGGCGCTGTCCTGGACTGCGCTTTCTACGATCCAACACATGCCT
GGAGTGGGGGATTAGACCATCAATTGAAAATGCATGATTTGAACACTGATCAAGAAAATCTTGTTGGAACCCATGATGCC
CCTATCAGATGTGTTGAATATTGTCCAGAAGTGAATGTGATGGTTACTGGGAGTTGGGATCAGACAGTTAAATTGTGGGA
TCCCAGAACCCCTTGTAATGCTGGGACCTTCTCTCAGCCTGAAAAGGTGTATACCCTCTCAGTGTCTGGAGACCGGCTGA
TTGTGGGCACCGCAGGCCGCAGAGTGTTGGTGTGGGACTTACGGAACACGGGCTACGTGCAGCAGCGCCGGGAGTCCAGC
CTCAAGTACCAGACTCGCTGCATACGAGCATTTCCAAACAAGCAGGGTTATGTATTAAGCTCTATTGAAGGCCGAGTGGC
AGTTGAGTACTTGGACCCAAGCCCTGAGGTACAGAAGAAGAAGTATGCCTTCAAGTGTCACAGACTGAAAGAAAATAATA
TTGAGCAAATTTACCCAGTCAACGCCATTTCGTTTCACAACATCCACAATACCTTTGCCACAGGTGGTTCTGATGGATTT
GTAAATATTTGGGATCCATTTAACAAAAAGCGGCTGTGCCAGTTCCATCGGTACCCCACCAGCATTGCGTCACTCGCCTT
CAGTAATGATGGGACTACACTTGCAATAGCATCATCGTATATGTATGAAATGGATGACACGGAACATCCCGAAGATGGTA
TCTTCATTCGCCAAGTGACAGATGCAGAAACAAAACCCAAGTCC

Alignment

ORF - retro_ttru_1136 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 99.03 %
• Parental protein coverage: 93.9 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SSVKFSPNTSQFLLVSSWDTSVRLYDVPANSMRLKYQHTGAVLDCAFYDPTHAWSGGLDHQLKMHDLNTD
          SSVKFS.NTSQFLLVSSWDTSVRLYDVPANS.RLKYQHTGAVLDCAFYDPTHAWSGGLDHQLKMHDLNTD
Retrocopy SSVKFSLNTSQFLLVSSWDTSVRLYDVPANSRRLKYQHTGAVLDCAFYDPTHAWSGGLDHQLKMHDLNTD

Parental  QENLVGTHDAPIRCVEYCPEVNVMVTGSWDQTVKLWDPRTPCNAGTFSQPEKVYTLSVSGDRLIVGTAGR
          QENLVGTHDAPIRCVEYCPEVNVMVTGSWDQTVKLWDPRTPCNAGTFSQPEKVYTLSVSGDRLIVGTAGR
Retrocopy QENLVGTHDAPIRCVEYCPEVNVMVTGSWDQTVKLWDPRTPCNAGTFSQPEKVYTLSVSGDRLIVGTAGR

Parental  RVLVWDLRNMGYVQQRRESSLKYQTRCIRAFPNKQGYVLSSIEGRVAVEYLDPSPEVQKKKYAFKCHRLK
          RVLVWDLRN.GYVQQRRESSLKYQTRCIRAFPNKQGYVLSSIEGRVAVEYLDPSPEVQKKKYAFKCHRLK
Retrocopy RVLVWDLRNTGYVQQRRESSLKYQTRCIRAFPNKQGYVLSSIEGRVAVEYLDPSPEVQKKKYAFKCHRLK

Parental  ENNIEQIYPVNAISFHNIHNTFATGGSDGFVNIWDPFNKKRLCQFHRYPTSIASLAFSNDGTTLAIASSY
          ENNIEQIYPVNAISFHNIHNTFATGGSDGFVNIWDPFNKKRLCQFHRYPTSIASLAFSNDGTTLAIASSY
Retrocopy ENNIEQIYPVNAISFHNIHNTFATGGSDGFVNIWDPFNKKRLCQFHRYPTSIASLAFSNDGTTLAIASSY

Parental  MYEMDDTEHPEDGIFIRQVTDAETKPKS
          MYEMDDTEHPEDGIFIRQVTDAETKPKS
Retrocopy MYEMDDTEHPEDGIFIRQVTDAETKPKS

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_1136 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1136 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 13 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000012700	1 retrocopy	retro_cfam_399,
Callithrix jacchus	ENSCJAG00000001066	1 retrocopy	retro_cjac_3085,
Cavia porcellus	ENSCPOG00000011957	1 retrocopy	retro_cpor_997,
Homo sapiens	ENSG00000154473	1 retrocopy	retro_hsap_3887,
Gorilla gorilla	ENSGGOG00000023971	1 retrocopy	retro_ggor_2614,
Myotis lucifugus	ENSMLUG00000017732	1 retrocopy	retro_mluc_627,
Macaca mulatta	ENSMMUG00000003092	1 retrocopy	retro_mmul_1729,
Nomascus leucogenys	ENSNLEG00000027075	1 retrocopy	retro_nleu_1887,
Procavia capensis	ENSPCAG00000007736	1 retrocopy	retro_pcap_412,
Pongo abelii	ENSPPYG00000002731	1 retrocopy	retro_pabe_3168,
Ictidomys tridecemlineatus	ENSSTOG00000021785	1 retrocopy	retro_itri_1095,
Tarsius syrichta	ENSTSYG00000013444	2 retrocopies	retro_tsyr_1652, retro_tsyr_732,
Tursiops truncatus	ENSTTRG00000016194	1 retrocopy	retro_ttru_1136 ,