RetrogeneDB ID: retro_ttru_864

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_401:105209..105761(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: STARD3NL
• Ensembl ID: ENSTTRG00000004099
• Aliases: None
• Description: STARD3 N-terminal like [Source:HGNC Symbol;Acc:19169]

Sequence

>retro_ttru_864
ATGAACCCCCTGCCAGAAGACATGGAGAACGCTCTCATGGGGAGTCAGAGCTCGCACGCTTCCCTGCGCGACGTCCATTC
CATCAACCCCACGCAACTCATGGCCAGGATTGAGTCCTATGAAGGAAAGGAAAAGAAAGGCATATCTGACGTCAGGAGGA
CTTTCTGTTTGTTTGTCCCCTTTGACCTCTTATTTGTAACGTTACTGTGGATAATAGAGTTAAATGTGAATGGAGGTATT
GAGAACACGTTAGAGAAAGAGGTGGTGCGGTAGGACTACTTCTCTTCTTATTTCGATATATTTCTTTTGGCAGTTTTTAA
ATTTAAAGTGTTAACACTTGCATATGCCACGTGCAGACTGCACCATTGGTGGGCCATAGCGTTGATGACAGCAGTGACCA
GTGCCCTTTCACTAGCAAAAGCAAAAGCGATCCTCTCAAAGCTTTTCTGTCAAGGGGCTTTCGGCTACGTGCTGCCCATC
ATTTCCTTCATCTTTGCCTGGATCGAGACGTGGTTCCTGGATTTCAAGGTGTTACCTCAAGAGGCAGAAGAA

Alignment

ORF - retro_ttru_864 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.22 %
• Parental protein coverage: 77.45 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MNPVPEDMENALMGSQSSHASLRDVHSINPTQLMARIESYEGREKKGISDVRRTFCLFVTFDLLFVTLLW
          MNP.PEDMENALMGSQSSHASLRDVHSINPTQLMARIESYEG.EKKGISDVRRTFCLFV.FDLLFVTLLW
Retrocopy MNPLPEDMENALMGSQSSHASLRDVHSINPTQLMARIESYEGKEKKGISDVRRTFCLFVPFDLLFVTLLW

Parental  IIELNVNGGIENTLEKEVVQYDYYSSYFDIFLLAVFRFKVLILAYAVCRLRHWWAIALTTAVTSAFLL--
          IIELNVNGGIENTLEKEVV..DY.SSYFDIFLLAVF.FKVL.LAYA.CRL.HWWAIAL.TAVTSA..L..
Retrocopy IIELNVNGGIENTLEKEVVR*DYFSSYFDIFLLAVFKFKVLTLAYATCRLHHWWAIALMTAVTSALSLAK

Parental  AKVILSKLFSQGAFGYVLPIISFILAWIETWFLDFKVLPQEAEE
          AK.ILSKLF.QGAFGYVLPIISFI.AWIETWFLDFKVLPQEAEE
Retrocopy AKAILSKLFCQGAFGYVLPIISFIFAWIETWFLDFKVLPQEAEE

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_864 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_864 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 10 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000038795	1 retrocopy	retro_btau_264,
Choloepus hoffmanni	ENSCHOG00000008990	1 retrocopy	retro_chof_984,
Callithrix jacchus	ENSCJAG00000012622	1 retrocopy	retro_cjac_3042,
Cavia porcellus	ENSCPOG00000004394	1 retrocopy	retro_cpor_1237,
Dasypus novemcinctus	ENSDNOG00000017960	1 retrocopy	retro_dnov_2389,
Equus caballus	ENSECAG00000005250	1 retrocopy	retro_ecab_709,
Microcebus murinus	ENSMICG00000000945	1 retrocopy	retro_mmur_388,
Macaca mulatta	ENSMMUG00000023659	1 retrocopy	retro_mmul_2643,
Ictidomys tridecemlineatus	ENSSTOG00000014750	1 retrocopy	retro_itri_286,
Tursiops truncatus	ENSTTRG00000004099	1 retrocopy	retro_ttru_864 ,