RetrogeneDB ID: retro_ttru_1093

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_102695:60531..61708(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: AZI2
• Ensembl ID: ENSTTRG00000016434
• Aliases: None
• Description: 5-azacytidine induced 2 [Source:HGNC Symbol;Acc:24002]

Sequence

>retro_ttru_1093
ATGGATGCACTGGTAGATGATGATATCTGCATTCTGAATCATGAAAAAGCCCATAGGAGAGATACAGTGACTCCAGTCTC
AATGTATTCAGGAGATGAATCTGTTGCTTCACATTTTGCCCTTGTCACTGCATATGAAGACATCAAAAAACGACTTAAGG
ATTCAGAGAAAGAGAACTCTTTCTTTAAAAAAAGAATAAGATTTTAGGAAGAAAAGCTTATAGGAGCTCAAAGGGATGAA
GAAACAAATTCTGTGGGAGGAGAACAAATAAATAAGGCCTACCAGGCATATCGAGAGGTTTGCATTGATAGAGTTAATCT
GAAGAGCAAATTGGATAAAATGAATGAAGACAACTCTGAATCTTTGAAAGTACTGAATGAACAGCTACAATCTAAAGAAG
TAGAACTCCTCCAGCAGAGGACAGAGATGGAAACTCGGCAGGTGATAAGAAATTTAAATCCACCTTCATCAAACCAGGAG
GTGGAAAAGTTGAGCTGTGACCTGAAGATCCATGGTTTGGAATAAGAACTGGAACTGATGAGGAAAGAATGTAGAGATCT
CAAAATAGAGCTAAAAGAATCCAAACAAACGGATCCATCTCAGGAAGACAGTCTGAAGAGCAGAGATCTCCAAAGACTAA
GCATTTCAAGTGATAATATGCAAAGTGCACACTGGGAACTGAAGAGAGAAATCTCTAATTTACATCCGGTGACTCAAGTA
CAAGCTGAACTTAAGAAAGCTGAAAACCCCAGCTGCAATCAAGAAAGCCTGCACCCCAGCAGGATGCATGGGAGACCCTG
GGAAAGACAGCACAAAACTGCACCTGACAAATTTTACCGCAACGTACAAAAGGCACGCCCCTCTCTCGCCAAGTGGCAAA
ACTCTTTGTCATGCCATGTCTTCCCATTTACCAGAAAATGTAAAGGTTTTATCAGAGAAAGCAGTTCTCCAGTCATGGAC
AGATCATGAGCGATCCATTCCTCACAACGGCACAAACTTTCAGGAACACAAATCTTATGGCAGAAATTCTCTGGAAGATA
ACTCTTGAGTATTCCCAAGCTCTCCTAAACCAAGTGAGACAACATTTGGGGAAACTAAAAATAAACCTTTCCCTTTATCC
AACCTGTCACCACTGCATTACTTGGATCAACATAATCAGAACTGCCATTATAAAAAT

Alignment

ORF - retro_ttru_1093 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.98 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MDALVEDDICILNHEKAHRRDTVTPVSIYSGDESVASHFALVTAYEDIKKRLKDSEKENSFLKKRIRVLE
          MDALV.DDICILNHEKAHRRDTVTPVS.YSGDESVASHFALVTAYEDIKKRLKDSEKENSF.KKRIR..E
Retrocopy MDALVDDDICILNHEKAHRRDTVTPVSMYSGDESVASHFALVTAYEDIKKRLKDSEKENSFFKKRIRF*E

Parental  EKLIGARKDEETSSVGREQVNKAYHAYREVCIDRDNLKSKLDKMNKDNSESLKVLNEQLQSKEVELLQLR
          EKLIGA..DEET.SVG.EQ.NKAY.AYREVCIDR.NLKSKLDKMN.DNSESLKVLNEQLQSKEVELLQ.R
Retrocopy EKLIGAQRDEETNSVGGEQINKAYQAYREVCIDRVNLKSKLDKMNEDNSESLKVLNEQLQSKEVELLQQR

Parental  TEVETQQVIRNLNPPSSNWEVEKLSCDLKIHGLEQELELMRKECRDLKIELQKAKQTXXXXXXXXXXXXX
          TE.ET.QVIRNLNPPSSN.EVEKLSCDLKIHGLE.ELELMRKECRDLKIEL...KQT.............
Retrocopy TEMETRQVIRNLNPPSSNQEVEKLSCDLKIHGLE*ELELMRKECRDLKIELKESKQTDPSQEDSLKSRDL

Parental  XXXXXXXDNMQSAYWELKREMSNLHLVTQVQAELLRKLKTPT-AIKKACAPAGCMEDLGKDSTKLHLMNF
          .......DNMQSA.WELKRE.SNLH.VTQVQAE.L.K...P..AIKKAC.PAGCM.D.GKDSTKLHL.NF
Retrocopy QRLSISSDNMQSAHWELKREISNLHPVTQVQAE-LKKAENPS>AIKKACTPAGCMGDPGKDSTKLHLTNF

Parental  TATYKRQAPLSPNSKTLCHATSSPLPGDAKVLSEKAALQSWTDHERSIPHDGTNFQEHNSYGRNSLEDNS
          TATYKR.APLSP..KTLCHA.SS.LP...KVLSEKA.LQSWTDHERSIPH.GTNFQEH.SYGRNSLEDNS
Retrocopy TATYKRHAPLSPSGKTLCHAMSSHLPENVKVLSEKAVLQSWTDHERSIPHNGTNFQEHKSYGRNSLEDNS

Parental  WVFPSPPKSSETTFGETKNKPLPLPNLSPLHYLDQHNQNCHYKN
          .VFPS.PK.SETTFGETKNKP.PL.NLSPLHYLDQHNQNCHYKN
Retrocopy *VFPSSPKPSETTFGETKNKPFPLSNLSPLHYLDQHNQNCHYKN

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_1093 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1093 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 14 parental genes, and 22 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000010432	2 retrocopies	retro_chof_1794, retro_chof_234,
Dasypus novemcinctus	ENSDNOG00000011053	2 retrocopies	retro_dnov_1377, retro_dnov_542,
Homo sapiens	ENSG00000163512	2 retrocopies	retro_hsap_1491, retro_hsap_1564,
Gorilla gorilla	ENSGGOG00000022881	2 retrocopies	retro_ggor_1145, retro_ggor_1189,
Loxodonta africana	ENSLAFG00000008538	2 retrocopies	retro_lafr_529, retro_lafr_925,
Myotis lucifugus	ENSMLUG00000000043	3 retrocopies	retro_mluc_1707, retro_mluc_435, retro_mluc_611,
Macaca mulatta	ENSMMUG00000000056	1 retrocopy	retro_mmul_2135,
Monodelphis domestica	ENSMODG00000015075	1 retrocopy	retro_mdom_1786,
Nomascus leucogenys	ENSNLEG00000004069	1 retrocopy	retro_nleu_1714,
Oryctolagus cuniculus	ENSOCUG00000014956	1 retrocopy	retro_ocun_1778,
Otolemur garnettii	ENSOGAG00000005896	1 retrocopy	retro_ogar_3078,
Pongo abelii	ENSPPYG00000014053	2 retrocopies	retro_pabe_1241, retro_pabe_3784,
Pan troglodytes	ENSPTRG00000014707	1 retrocopy	retro_ptro_1052,
Tursiops truncatus	ENSTTRG00000016434	1 retrocopy	retro_ttru_1093 ,