RetrogeneDB ID: retro_ttru_240

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1675:51600..52101(-)
• Located in intron of: ENSTTRG00000009949

Retrocopy information

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

Parental gene information

• Parental gene symbol: KNSTRN
• Ensembl ID: ENSTTRG00000010577
• Aliases: None
• Description: kinetochore-localized astrin/SPAG5 binding protein [Source:HGNC Symbol;Acc:30767]

Sequence

>retro_ttru_240
TCGGATGAGGCCTGAGGGCAGAAGCAGCAGATGCCTAGGCCCCAGCAGTGCCACCTCATTATGATGACCAGAGTGGTTAA
GACAGTGTACACCCTGCAGCCCTCCTCTGTGCTATCAGCAGTGGCCTGCCCACAAATGCACAAACTCGAGCCACTTCTAA
GAACCTTTTTCCTGTTAAGTCCAAAGAAGTTGATGTTTCCAGACCTCATTCAGGAGGTTCAGATTAACGATGTTACAAAA
ATCATCAAACCAAGACGAGAGAATGGGCAGGTTAAAGCTACAGACACTGGCACCAGGAAGAGCTACAAACTATTGAGTAA
ACTGAAATCAGAGGAAGAGCTCAAGGATAAGAACCAGCTCTTAGAGGCCATCAACAAGCAGTTGCACCAAAAGTTGACTG
AAACTCAGGGAGAGCTAAAGGACCTGACCTAAAAGGTGGAGCTGCTGGGGAAGTTTCAGGACAACTGTTTGGCAATTTTG
GAGAGCAAGGGCCTCAACCCA

Alignment

ORF - retro_ttru_240 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.3 %
• Parental protein coverage: 53.97 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  SDEACGQEQQASGPQPCRLVTMTSVVKTVYTLQ-PP-SVLSSGLSADAQARATSKSLLPVRSKEVDVSRP
          SDEA.GQ.QQ...PQ.C.L..MT.VVKTVYTLQ.PP....SSGL...AQ.RATSK.L.PV.SKEVDVSRP
Retrocopy SDEA*GQKQQMPRPQQCHLIMMTRVVKTVYTLQ>PP>CAISSGLPTNAQTRATSKNLFPVKSKEVDVSRP

Parental  HLGDSE-NDVTKIIKPRRDNGQLRATDTATRRNIRKSYKPLSKEKSEEELKDKNQLLEAVNKQLHQKLIE
          H.G.S..NDVTKIIKPRR.NGQ..ATDT.T....RKSYK.LSK.KSEEELKDKNQLLEA.NKQLHQKL.E
Retrocopy HSGGSD>NDVTKIIKPRRENGQVKATDTGT----RKSYKLLSKLKSEEELKDKNQLLEAINKQLHQKLTE

Parental  TQGELKDLTQKVELLEKFQDSCLAILESKGLNP
          TQGELKDLT.KVELL.KFQD.CLAILESKGLNP
Retrocopy TQGELKDLT*KVELLGKFQDNCLAILESKGLNP

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_240 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_240 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 6 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000032340	2 retrocopies	retro_btau_1217, retro_btau_274,
Choloepus hoffmanni	ENSCHOG00000007085	3 retrocopies	retro_chof_1378, retro_chof_2237, retro_chof_504,
Monodelphis domestica	ENSMODG00000000464	1 retrocopy	retro_mdom_1200,
Otolemur garnettii	ENSOGAG00000009825	1 retrocopy	retro_ogar_1829,
Tupaia belangeri	ENSTBEG00000012043	4 retrocopies	retro_tbel_2696, retro_tbel_3958, retro_tbel_4092, retro_tbel_787,
Tursiops truncatus	ENSTTRG00000010577	1 retrocopy	retro_ttru_240 ,