RetrogeneDB ID: retro_ttru_524

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_2577:184168..185459(-)
• Located in intron of: ENSTTRG00000010885

Retrocopy information

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

Parental gene information

• Parental gene symbol: CCNB1
• Ensembl ID: ENSTTRG00000002874
• Aliases: None
• Description: cyclin B1 [Source:HGNC Symbol;Acc:1579]

Sequence

>retro_ttru_524
ATGGCGCTCTGGATCACCAGGAACTGAACATTAATGCTGAAAATAACGTGAAGGTCAGTATGGCAGGCGCAAAGTGAGTG
CCTGTGGCCACTGTTGCAGCCTCTAAGCCCGGGCTGAGGCCCAGAACAGCGCTTGGGGACATCGGTAACAGAGTCAGTAA
AGAGCCACAGGCCAAACTGCCCCTGAAAAAGGAAGCAAAAACTCTAGCTGCTGGAAAAGTTATTGCTAAAAAACTACCAA
AACCTCTGGAAAAGACACCTGTACCTGCGCTGAAGCCCCACCTGGAGCCGGATCTGGAGCCAGAGCCAGAACCCGAGCCT
GTTAAAGAACAGAAACTTCCCCCTGAGCCTATTTTGGTTGATACTCCCTCTCCAAGCCCCATGGAAACACCTGGCTGTGC
CCCTGCAGGAGAATATGTGTGTCAGGCTTTCTCTGATGTAATTCTTACAGCGAGTGATGTGGAGGCAGAAGATGGAGCGG
ATCCAAACCTTTGTAGTGAAGATGTAAAAGATATCTATGCTTATCTGAGACAACTGGAGGAAGAGCAAGCAGTCAGACCA
AAATACCTACTGGGTCATGAAGTGACTGGAAACATGAGAGCCATCCTAATTGACTGGCTAGTGCAGGTTCAAATGAAATT
CAGGTTACTCCAGGAGATCATGTACATGACTGTTTCCATTATTGGTCGGTTCATGCAGGATAGTTGTGTGCCCAAGAAGA
TGCTGCAGCTGGTTGGTGTCACTGCCATGTTTATTGCAAGCAAATACGAGGAAATGTACCCTCCAGAAATTGGTGACTCT
GCCTTTGTGACTGACAACACTTACACTAAGTACCAAATCAGACAGATGGAATGAATATTCTAAGAGCTTTAAATTTTAGT
CTGGGTCGCCCTCTACCCCTGCGTTCTCTTCGGAGAGCATCTAAGATTGGAGAGGTTGATGTTGAGCTACATACTTTGGC
CAAGTATCTGATGGAACTAACTACGTTGAACTACCATATGGTGCACTTTCCTCCTTCTCAGATTGCAGCGGGAGCTTTTT
GCTTAGCACTGAAAATTCTTGATAATGGTGAATGGGCACCAACTCTACAGCATTACCTGTCATACACTGAAGAATCCCTT
CTTGTTGTTATGCAACACCTGGCTAAGAATATAGTCATGGTGAATCGTGGGCTTACAAAGCACATGACTATCAAGAACAA
GTATGCCGCGTCTAAGCACACTAAGATCAGCACTCTAGCACAGCTGAATTCTGCACTAGTTCAAGATTTAGCCAAGGCTG
TGGCAAAGGTG

Alignment

ORF - retro_ttru_524 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.97 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MALRITRN-TKINAENKAKVSMAGAKRVPVATVAASKPGLRPRTALGDIGNKVSEQPQAKLPLKKEAKTL
          MAL.ITRN...INAEN..KVSMAGAK.VPVATVAASKPGLRPRTALGDIGN.VS..PQAKLPLKKEAKTL
Retrocopy MALWITRN<LNINAENNVKVSMAGAK*VPVATVAASKPGLRPRTALGDIGNRVSKEPQAKLPLKKEAKTL

Parental  AAGKVIAKKLPKPLEKAPVPVPEPQPELDLEPEPEPETEPVKEEKLAPEPILVDTPSPSPMETSGCAPAE
          AAGKVIAKKLPKPLEK.PVP...P..E.DLEPEPEPE..PVKE.KL.PEPILVDTPSPSPMET.GCAPA.
Retrocopy AAGKVIAKKLPKPLEKTPVPALKPHLEPDLEPEPEPE--PVKEQKLPPEPILVDTPSPSPMETPGCAPAG

Parental  EYLCQAFSDVILAVNDVDAEDGADPNLCSEYVKDIYAYLRQLEEEQAVRPKYLLGREVTGNMRAILIDWL
          EY.CQAFSDVIL...DV.AEDGADPNLCSE.VKDIYAYLRQLEEEQAVRPKYLLG.EVTGNMRAILIDWL
Retrocopy EYVCQAFSDVILTASDVEAEDGADPNLCSEDVKDIYAYLRQLEEEQAVRPKYLLGHEVTGNMRAILIDWL

Parental  VQVQMKFRLLQETMYMTVSIIDRFMQDNCVPKKMLQLVGVTAMFIASKYEEMYPPEIGDFAFVTDNTYTK
          VQVQMKFRLLQE.MYMTVSII.RFMQD.CVPKKMLQLVGVTAMFIASKYEEMYPPEIGD.AFVTDNTYTK
Retrocopy VQVQMKFRLLQEIMYMTVSIIGRFMQDSCVPKKMLQLVGVTAMFIASKYEEMYPPEIGDSAFVTDNTYTK

Parental  YQIRQME-MKILRALNFSLGRPLPLHFLRRASKIGEVDVELHTLAKYLMELTMLDYDMVHFPPSQIAAGA
          YQIRQME.M.ILRALNFSLGRPLPL..LRRASKIGEVDVELHTLAKYLMELT.L.Y.MVHFPPSQIAAGA
Retrocopy YQIRQME<MNILRALNFSLGRPLPLRSLRRASKIGEVDVELHTLAKYLMELTTLNYHMVHFPPSQIAAGA

Parental  FCLALKILDNGEWTPTLQHYLSYTEESLLLVMQHLAKNIIIVNRGLTKHMTIKNKYATSKHAKISILAQL
          FCLALKILDNGEW.PTLQHYLSYTEESLL.VMQHLAKNI..VNRGLTKHMTIKNKYA.SKH.KIS.LAQL
Retrocopy FCLALKILDNGEWAPTLQHYLSYTEESLLVVMQHLAKNIVMVNRGLTKHMTIKNKYAASKHTKISTLAQL

Parental  NSALVQDLAKAVAKV
          NSALVQDLAKAVAKV
Retrocopy NSALVQDLAKAVAKV

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_524 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_524 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 8 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000007705	1 retrocopy	retro_cfam_213,
Cavia porcellus	ENSCPOG00000014629	1 retrocopy	retro_cpor_13,
Myotis lucifugus	ENSMLUG00000012856	1 retrocopy	retro_mluc_1020,
Mustela putorius furo	ENSMPUG00000014648	1 retrocopy	retro_mputfur_58,
Procavia capensis	ENSPCAG00000002451	1 retrocopy	retro_pcap_176,
Sarcophilus harrisii	ENSSHAG00000007685	1 retrocopy	retro_shar_290,
Tupaia belangeri	ENSTBEG00000011817	4 retrocopies	retro_tbel_1185, retro_tbel_3200, retro_tbel_4185, retro_tbel_4531,
Tursiops truncatus	ENSTTRG00000002874	2 retrocopies	retro_ttru_524 , retro_ttru_59,