RetrogeneDB ID: retro_ttru_1575

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_17177:342..1755(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RBBP8
• Ensembl ID: ENSTTRG00000009810
• Aliases: None
• Description: Retinoblastoma binding protein 8 [Source:UniProtKB/TrEMBL;Acc:F4YEH8]

Sequence

>retro_ttru_1575
GTGGCTGACACGTGATCAGAGTCAGCTCCAGTGGCCACACACATGGAAAAAGCAGTATCTCTGATGATTTAGTGCAGTTG
TTGCTGAAAGACTTGGACTTAGTGTTCAAGATGAGTCTGAATCTCGAGGTCCTATGAGCCTTCTTGGTGATGAGCTCTAC
CACTGTCTGGAAGGAGATCACAAAAAACCTTTTGAGGAATCTAGAAGAAATAGTGAAGATAGTTTAAGATTTTCAGATTC
GAATTCAAAGACTCCTCCTCAAAAAGAATTGACTACTCGGGTATCATCTCCTGTATTTGGCGCTACCCCTAATGTGAAAA
GTAATTTAGGTTTGAATACAAGTTTGTCCCCTTCTCTTTTAGAGACTGGGAAAAACACCATCTGTAAACAACGCCTTTCA
GCAACACTTCTAATTCTAGACCAGAGAAACCTAGATCAAAATCTGAAGATGGTGCCCTTTTCACACATCATAATATCGGG
GCTGAAGTGAAGAAGATCACTAACCAGTCATCTTCTAATAAGCAGGTGCTTATAAATAAAAATACAAGTGAACAGGATAG
TATTGATCACATTAAAGATACTGTTACTGATAAACATGTGGTACCCCTGAAATCACTGGGAGGCCGAATCAAAAGGAAGA
AAATCAAGGAAGAAAGTGAAGATGAAGTAAGCTGCCCCCAAGCCTCCTTTGATAAAGAAAATGCTTTTCCTTTTCCACCG
GATAGTCATTCTTACATGAATGGAGACTATGTGATGGATAAACCTCTGGATCTGTCTGATCGATTTTCACCTATTCAGCG
TCAAGAGAAAAGCCAAGGAAGTGAGAACTCTAAAGTCGGGTTTAGGCAAGTGACTCTCTATGAGGTTTTGAAGCCTGTTC
CAAAGGGCTCTTCCTCAAGCCATAAGGCCTTGAGTGGGAGCTGTGGGTTAACCAAAGATTCCCCAGAAGAGCCCAGCAGT
TTACAGGAGTCCCTCCTCCAGTCCTTGAGTAAATCTCCAGATAATAAAACACTGTTACAAATAAAGGAAGAAAATTCTAT
CTTTAAAATTCCTCTACATCCACGTGAAAGTTTGGAGACAGAGAATCTTTTTGATGACACGAAGGGTGCTGGTTCTCGTG
AGCCTCTAAAAATAAAAACCAGGTCAGTCCATGGAGCATGTGAACTTGCATCAGTTCTTCAGTTAAATCCGTGTAGAATT
GCTAAAACAAAGTCTCTACAAAACAACCAAGATGTATCCTTTGAAAACATCCAGGGGAGTATAGATCCAGGAGCAGACCT
TTCTCAGTATAAAATGGATATCACTGTAGTAGATACAAAGGAGGGCAGTCAGTCAAGATTAGCAGGAGGAGAGACAGTGG
ACATGGACTGTACATTGGTTAGTGAAAGTATGCTTTTAAAAATGAAGAATCAA

Alignment

ORF - retro_ttru_1575 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.4 %
• Parental protein coverage: 56.26 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  VADTCDQSQAPVA-NTHGKSSYPPDNL-ATVVAETLGLSVQDESESRGPMSPVGDELYHCLEGEHKKPFE
          VADT...S.APVA..THGKSS...D.L...VVAE.LGLSVQDESESRGPMS..GDELYHCLEG.HKKPFE
Retrocopy VADT*SES-APVA<HTHGKSSIS-DDL<SAVVAERLGLSVQDESESRGPMSLLGDELYHCLEGDHKKPFE

Parental  ESRRNSEDSLTFSDSNSKPPPQEELTTRVSSPVFGATSNVKSSLGLNTSLSPSLLETGK-KNHLKTMPFS
          ESRRNSEDSL.FSDSNSK.PPQ.ELTTRVSSPVFGAT.NVKS.LGLNTSLSPSLLETGK.K.HL.T.PFS
Retrocopy ESRRNSEDSLRFSDSNSKTPPQKELTTRVSSPVFGATPNVKSNLGLNTSLSPSLLETGK<KHHL*TTPFS

Parental  NTSNSRSEKPRLKSEDGALFTHHNIGAEVKKITNQSSSNKQMLINKNTSEQDSIDHIKDTVTDKDKHVVP
          NTSNSR.EKPR.KSEDGALFTHHNIGAEVKKITNQSSSNKQ.LINKNTSEQDSIDHIKDTVTDK..HVVP
Retrocopy NTSNSRPEKPRSKSEDGALFTHHNIGAEVKKITNQSSSNKQVLINKNTSEQDSIDHIKDTVTDK--HVVP

Parental  LKSLGGRTKRKKIEEESEDEVSCPQASFDKENAFPFPPDSHSYMNGDYVMDKPLDLSDRFSAIQRQEKSQ
          LKSLGGR.KRKKI.EESEDEVSCPQASFDKENAFPFPPDSHSYMNGDYVMDKPLDLSDRFS.IQRQEKSQ
Retrocopy LKSLGGRIKRKKIKEESEDEVSCPQASFDKENAFPFPPDSHSYMNGDYVMDKPLDLSDRFSPIQRQEKSQ

Parental  GSENSKIGFRQMTLSEVLKPVPKGSSSSHKALSGSCGLTRDSPEEPSSLQESLLQSLNKSPDNKTLLQIK
          GSENSK.GFRQ.TL.EVLKPVPKGSSSSHKALSGSCGLT.DSPEEPSSLQESLLQSL.KSPDNKTLLQIK
Retrocopy GSENSKVGFRQVTLYEVLKPVPKGSSSSHKALSGSCGLTKDSPEEPSSLQESLLQSLSKSPDNKTLLQIK

Parental  EENSIFKIPLHPRESLETENLFDDMKGAGSCEPIKVKTRSVHGACELASVLQLNPCRIAKTKSLQNNQDV
          EENSIFKIPLHPRESLETENLFDD.KGAGS.EP.K.KTRSVHGACELASVLQLNPCRIAKTKSLQNNQDV
Retrocopy EENSIFKIPLHPRESLETENLFDDTKGAGSREPLKIKTRSVHGACELASVLQLNPCRIAKTKSLQNNQDV

Parental  SFENIQWSIDPGADLSQYKMDITVVDTKDGSQSRLAGGETVDMDCTLVSETMLLKMKNQ
          SFENIQ.SIDPGADLSQYKMDITVVDTK.GSQSRLAGGETVDMDCTLVSE.MLLKMKNQ
Retrocopy SFENIQGSIDPGADLSQYKMDITVVDTKEGSQSRLAGGETVDMDCTLVSESMLLKMKNQ

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_1575 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1575 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 2 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Monodelphis domestica	ENSMODG00000021493	2 retrocopies	retro_mdom_1791, retro_mdom_445,
Tursiops truncatus	ENSTTRG00000009810	1 retrocopy	retro_ttru_1575 ,