RetrogeneDB ID: retro_ttru_430

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_2251:91344..92253(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: KPNA7
• Ensembl ID: ENSTTRG00000002998
• Aliases: None
• Description: karyopherin alpha 7 (importin alpha 8) [Source:HGNC Symbol;Acc:21839]

Sequence

>retro_ttru_430
TCACCAGCTGCCCGCCTTAACAGATTCAAGAACAAGGGGAAAGACAGTACAGAAATGAGGCAGCGCCGAATAGAAGTTAA
TGTGGGGCTCAGGAAAGCTAAGAAGAGTGATCAGATGCTGAAAAGGAGAAATGTCAGCTCTTTTCCAGATGATGCTGCTT
CTCCACTGCAGGAAAACCACAACCAGGGCACTGTAAATTGGTCTGTTGATGACACTGTCAAAGGCATAAGTAGCAACAAC
TTGGAAAGCCAGCTCCAAGCTACTCAAGCTGCTAGGAAACTGCTTTCTAGGAAAAAACAGCCCCCCATAGACAACATAAT
CCGGGCGGGTTTGATTCCAAAATTTGTGTCCTGCTTGGGCAGAACTGACTGTAGTCCCATTCAGTTTGAATCTTCTTGGG
CCCTCACTAACATTGCTTCCGGGACATCAGAACAGACCAAGGCTGTGGTAGATGGAGGTGCTATCCCAGCATTCATTTCT
CTGTTGGCATCTCCCCACGCTCACATCAGTGAACAAGCTCTGTGGGCTCTAGGAAACATTGTAGGTGATGGCTTGGTTTT
CTGAGACTTGGTTATCAAGTATGGTGCAGTTGACCCGCTGTTGGCACTCCTGGAGGTTCCTGATTTGTCATCTTTAGCAC
ATGGTTACTTACGTAATCTCACCTGGACACTTTCAAATCTTCTTCCTAACAAGAATCCTGCACCACCCCCCTTAGACGCT
GTTGAGCAAGTTCTTCCTACTTTAGTTCGTCTCCTGCATCACGATGATCCAGAAGTTTTAGCTGATACCTGCTGGTCTGT
TTCCTACCTTACCGATGGTCCAAATGAACAGATTGAAATGGTTGTGAAAACCGGGGTTGTACCCCAACTTCTGAAGCTTT
TAGGAGCTACAGAATTGCCAATCGTGACT

Alignment

ORF - retro_ttru_430 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.16 %
• Parental protein coverage: 58.92 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  APEERLRKFKYRGKDASMRRQQRIAVSLELRKAKKDEQSLKRRNITDVSPDAS----EQQTKRTVSLTLQ
          .P..RL..FK..GKD....RQ.RI.V...LRKAKK..Q.LKRRN......DA.....E.....TV.....
Retrocopy SPAARLNRFKNKGKDSTEMRQRRIEVNVGLRKAKKSDQMLKRRNVSSFPDDAASPLQENHNQGTVNWSVD

Parental  EIINGVNASDPELCFQATQAARKMLSREKNPPLKLIVDAGLIPRLVEFLKSSLHPRLQLEAAWALTNIAS
          ....G......E...QATQAARK.LSR.K.PP...I..AGLIP..V..L........Q.E..WALTNIAS
Retrocopy DTVKGISSNNLESQLQATQAARKLLSRKKQPPIDNIIRAGLIPKFVSCLGRTDCSPIQFESSWALTNIAS

Parental  GTSELTRAVVDGGAIQPLVELLSSPHMTVCEQAVWALGNIAGDGPKFRDDVILSDAIPHLLTLVS----S
          GTSE.T.AVVDGGAI.....LL.SPH....EQA.WALGNI.GDG..F.D.VI...A...LL.L......S
Retrocopy GTSEQTKAVVDGGAIPAFISLLASPHAHISEQALWALGNIVGDGLVF*DLVIKYGAVDPLLALLEVPDLS

Parental  SIPVTFLRNITWTLSNLCRNKNPYPSD-HAVKQMLPTLFHLLWHPDEEVLSDTCWALSYLTDGCDTRIGQ
          S.....LRN.TWTLSNL..NKNP.P....AV.Q.LPTL..LL.H.D.EVL.DTCW..SYLTDG....I..
Retrocopy SLAHGYLRNLTWTLSNLLPNKNPAPPPLDAVEQVLPTLVRLLHHDDPEVLADTCWSVSYLTDGPNEQIEM

Parental  VVDTGVLPRLVELMSSSELNVLT
          VV.TGV.P.L..L....EL...T
Retrocopy VVKTGVVPQLLKLLGATELPIVT

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_430 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_430 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 23 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000015125	2 retrocopies	retro_cfam_459, retro_cfam_861,
Choloepus hoffmanni	ENSCHOG00000004243	1 retrocopy	retro_chof_805,
Callithrix jacchus	ENSCJAG00000015943	1 retrocopy	retro_cjac_2964,
Equus caballus	ENSECAG00000000554	1 retrocopy	retro_ecab_981,
Echinops telfairi	ENSETEG00000000096	1 retrocopy	retro_etel_1548,
Homo sapiens	ENSG00000185467	1 retrocopy	retro_hsap_3337,
Mus musculus	ENSMUSG00000038770	2 retrocopies	retro_mmus_2844, retro_mmus_3301,
Nomascus leucogenys	ENSNLEG00000010827	1 retrocopy	retro_nleu_1680,
Otolemur garnettii	ENSOGAG00000031106	3 retrocopies	retro_ogar_1289, retro_ogar_3237, retro_ogar_353,
Ochotona princeps	ENSOPRG00000015434	2 retrocopies	retro_opri_1101, retro_opri_118,
Pongo abelii	ENSPPYG00000017369	1 retrocopy	retro_pabe_2750,
Pan troglodytes	ENSPTRG00000019446	2 retrocopies	retro_ptro_102, retro_ptro_2142,
Tupaia belangeri	ENSTBEG00000009007	3 retrocopies	retro_tbel_1475, retro_tbel_3862, retro_tbel_3962,
Tursiops truncatus	ENSTTRG00000002998	2 retrocopies	retro_ttru_1426, retro_ttru_430 ,