RetrogeneDB ID: retro_ttru_1914

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_98540:71075..72582(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SENP5
• Ensembl ID: ENSTTRG00000013899
• Aliases: None
• Description: SUMO1/sentrin specific peptidase 5 [Source:HGNC Symbol;Acc:28407]

Sequence

>retro_ttru_1914
AGTGAAAAGAAAGGACACTAAACACTTCATTTCCTCCTCAAGTACCTTCCTGAAATTCCAAGCAGAGAAGTTGCTATCAT
CAGCAAAGAACTCTGATCTGATCATGAATATTCTGGAGAGAAAAGTCTCTTGAAAGGCAGCTGCTGACGTACCAGCAAAT
AGTGTTTTAAGTCAGCCAGTGGTTCACAGACCTCGGATGGAGCCACAGGCTTCTCGTCTTCCTATGAAGTTCAATGGGGA
GAGCCAGAGTCCAGGTGAGAGTGTACAATTGTTGTCACCTTGAGCAACCATAAGAGAAAGAGCTTTTTGTTATGGCTGCT
ACCAAGGGCTGGAGCACCACAGAATGAGGGACCCCTGATTCCAAAAAAAGTTTCAACTTAACAGAGAGAATTAAAGTATC
TTCCTCATTGATGTATGAGAATGATCATGATAGATTTCGGTACAGGGTTTCAGATCCCAGCATTCAGAACAAAAGCAAAG
CTTGCAAGCTAAAAAAGCCCAGCAAACTGGGTGCAGGTCACTGGGACCATCAAGAGACCTTATGGAGAACAGTGCGGGTG
GCAGTTGTAGCCATTCCGTTCCCCAGAACTGAAGAGCGTTCTGTCGGCATTAACCATACTTCCAGATATGGACAGCAATG
CTGTGGTGAAGGGAAAGAACTCTCATGTGCGTCATGGCCACACTAAAGGAAGCCCTCTCTTGGGCAAGGAGCTTAGTTTA
GATGAAGCATTCCCTGACCAACAGAATGGCAGTGCCACAATGCACCTGGGGCGAGTCAGCCTCTTCCTCTCCTAAGTGGG
AGTGTACAGAACTGATTCATGACATCCCCTTACCAGAACATCATTCTAGTAACATGTTTATCTTGGAAACTGAGAGAGAA
GTTATGGCTCTGGGTCAGGAAAATCGGACAAGTACTGTCAATGATGACACAGTAAAACTGTCAGTGTCAGGGGCAGATCA
ATCTGTGAGTAGTGTAGATGGGCCTGTGTCCAAAGACACTGTTCAGAATGAGAGCTCATGCCAGTGGGATGAGGATGGAT
CTTTCAAGCAGAACATTCTTAGTTCTAAGTTGCTGGACCACCCTTACTGTAAAAGTCCACTGGAGGCTCCTCTGACAGGC
AGTGGACTCAAACTAGAAAATCAAGTGGGAGGTGGGAAGAACAGTCAAAAAGCCTCTCCAGTGGATGGTGAACAGCTGTC
AATCTGCTTTTCTGGATTCCTGGATGAGGTTATGAAGAAGTATGTCAGTTTGGTCCCACTCAGTGAAAAAGATGACCTTG
GAAGATTAAAAGGTGTCTTTAACGAAGACTTTTCCAATAGAAAACCATTTATCAATAGGGAAATAAGAAACTATCAGGCC
AGACATCAAAAATGCAACTTCCGTATCTTCTACAATAAGCACATGCTGGATATGGAGGATCTGGCAACCCTACATGGTCA
GAATTGGCTGAATGACCAGGTCATTAATATGTACAGTGAGCTGATAATGGATGCAGTCCCAGACAAA

Alignment

ORF - retro_ttru_1914 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.93 %
• Parental protein coverage: 67.46 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 13

Retrocopy - Parental Gene Alignment:

Parental  SKVKGKDTKHFISSSRTFLKLQAEKLLSSAKNSDHEYSGEKSLLK-AATDIPANSVLSQASGHRPRTEPQ
          S..KG..T.HF................S....SDHEYSGEKSLLK.AA.D.PANSVLSQ...HRPR.EPQ
Retrocopy SEKKGH*TLHFLLKYLPEIPSREVAIISKEL*SDHEYSGEKSLLK>AAADVPANSVLSQPVVHRPRMEPQ

Parental  ASDPPMKFNGESQSPGESG-TIVVTLSNHKRKRF-CYGCCRGLEHHRNGGPLIPRK-FQLNQHRRIKVSP
          AS..PMKFNGESQSPGES..TIVVTLSNHKRK.F.CYGC..GLEHHR...P....K.F.L....RIKVS.
Retrocopy ASRLPMKFNGESQSPGESV<TIVVTLSNHKRKSF>CYGCYQGLEHHRMRDP*FQKK>FNLTE--RIKVSS

Parental  HMMYEKLSMIRFRYRI-LRSQH-FRTK-SKVCKLKK-AQRS-WVQVTG-DHQETL-RENSEGGSCSLFPS
          ..MYE.....RFRYR...RSQH.FRTK.SK.CKLKK.AQ...WVQVTG.DHQETL..ENS.GGSCS....
Retrocopy SLMYEN-DHDRFRYRV<FRSQH<FRTK<SKACKLKK<AQQT<WVQVTG<DHQETL<MENSAGGSCS-HSV

Parental  PEPKDPSCRHQPY-LPDMDSNAVVKGENSHVPDGHTKGSPLLGKELSLDEAFPDQQNGSATY-IWDQSPC
          P......CRH.PY.LPDMDSNAVVKG.NSHV..GHTKGSPLLGKELSLDEAFPDQQNGSAT...W..S..
Retrocopy PQN*RAFCRH*PY<LPDMDSNAVVKGKNSHVRHGHTKGSPLLGKELSLDEAFPDQQNGSATM>TWGESAS

Parental  SSPKWECTELIHDIPLPEHHSNNMFISETEGEVMALGQENRTSTVNDDRVKLSVSGADQSVSSVDGPVSE
          SSPKWECTELIHDIPLPEHHS.NMFI.ETE.EVMALGQENRTSTVNDD.VKLSVSGADQSVSSVDGPVS.
Retrocopy SSPKWECTELIHDIPLPEHHSSNMFILETEREVMALGQENRTSTVNDDTVKLSVSGADQSVSSVDGPVSK

Parental  ETVQNESSCQMDEDGSFKQNILSSKLLDHPYCKSPLEAPLTCSGLKLENQVGGGKNSQKASPVDDEQLSI
          .TVQNESSCQ.DEDGSFKQNILSSKLLDHPYCKSPLEAPLT.SGLKLENQVGGGKNSQKASPVD.EQLSI
Retrocopy DTVQNESSCQWDEDGSFKQNILSSKLLDHPYCKSPLEAPLTGSGLKLENQVGGGKNSQKASPVDGEQLSI

Parental  CLSGFLDEVMKKYGSLVPLSEKDVLGRLKDVFNEDFSNRKPFINREITNYRARHQKCNFRIFYNKHMLDM
          C.SGFLDEVMKKY.SLVPLSEKD.LGRLK.VFNEDFSNRKPFINREI.NY.ARHQKCNFRIFYNKHMLDM
Retrocopy CFSGFLDEVMKKYVSLVPLSEKDDLGRLKGVFNEDFSNRKPFINREIRNYQARHQKCNFRIFYNKHMLDM

Parental  DDLATLDGQNWLNDQVINMYGELIMDAVPDK
          .DLATL.GQNWLNDQVINMY.ELIMDAVPDK
Retrocopy EDLATLHGQNWLNDQVINMYSELIMDAVPDK

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_1914 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1914 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Rattus norvegicus	ENSRNOG00000048136	2 retrocopies	retro_rnor_1522, retro_rnor_531,
Tursiops truncatus	ENSTTRG00000008239	1 retrocopy	retro_ttru_377,
Tursiops truncatus	ENSTTRG00000013899	1 retrocopy	retro_ttru_1914 ,