RetrogeneDB ID: retro_ttru_228

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1612:311661..312162(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SLC25A1
• Ensembl ID: ENSTTRG00000006845
• Aliases: None
• Description: solute carrier family 25 (mitochondrial carrier; citrate transporter), member 1 [Source:HGNC Symbol;Acc:10979]

Sequence

>retro_ttru_228
ATGGCCACGCCCCACACTCTGGCGGCAGGGGCGCCCGCACCCAGGAAGGCCACCCTCACACACCCGGGGAAGGCGATCCT
GGCAGGCGACACGGAAATCTGCATCACCTTCCACACCAAGCACGTGAAGACGCAGCTGCAGCTGGACGAGTGCTTGCACC
CGCCGCGCTACGAGGGCATCGGGGACTGCGTGCGGCGGACGGTCCACAACCATGGCGTACCGGGCCTGTACCGCGGCCTC
ATCACCTTGCTCTACGGCTCCATCCCAAAGGCGGCCGTCCAGTTCGGGATGTTCGAGTTTCTCAGCAACCACATGCGGGA
CGCCCAGGGACGGCTAGACAGCACACGCGGGCTGCTGTGCGGCCTGGGCGCCGGTGTGGCAGATGCCATGGTGGTCGTGT
GCCCCATGGAGACCATCAAGGTGAAGTTAATCCATGACCAGACCTACCCCAGCCCCAAATACAGAGGATTCTTCCACGGG
GTCAGGGAGATCGTTTGGGAA

Alignment

ORF - retro_ttru_228 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.04 %
• Parental protein coverage: 55.52 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MPAPRALAAGAPAPGKAALTHPGKAILAGGLAGGIEICITFPTEYVKTQLQLDERSHPPRYRGIGDCVRQ
          M..P..LAAGAPAP.KA.LTHPGKAI....LAG..EICITF.T..VKTQLQLDE..HPPRY.GIGDCVR.
Retrocopy MATPHTLAAGAPAPRKATLTHPGKAI----LAGDTEICITFHTKHVKTQLQLDECLHPPRYEGIGDCVRR

Parental  TVRNHGVLGLYRGLSSLLYGSIPKAAVRFGMFEFLSNHMRDAQGRLDSTRGLLCGLGAGVAEAVVVVCPM
          TV.NHGV.GLYRGL..LLYGSIPKAAV.FGMFEFLSNHMRDAQGRLDSTRGLLCGLGAGVA.A.VVVCPM
Retrocopy TVHNHGVPGLYRGLITLLYGSIPKAAVQFGMFEFLSNHMRDAQGRLDSTRGLLCGLGAGVADAMVVVCPM

Parental  ETIKVKFIHDQTSPSPKYRGFFHGVREIVRE
          ETIKVK.IHDQT.PSPKYRGFFHGVREIV.E
Retrocopy ETIKVKLIHDQTYPSPKYRGFFHGVREIVWE

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_228 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_228 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.

---

Parental genes homology:

Parental genes homology involve 8 parental genes, and 24 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000100075	2 retrocopies	retro_hsap_1632, retro_hsap_804,
Gorilla gorilla	ENSGGOG00000006198	2 retrocopies	retro_ggor_1230, retro_ggor_661,
Macaca mulatta	ENSMMUG00000005431	4 retrocopies	retro_mmul_1077, retro_mmul_1556, retro_mmul_1683, retro_mmul_485,
Nomascus leucogenys	ENSNLEG00000005215	2 retrocopies	retro_nleu_2866, retro_nleu_408,
Ochotona princeps	ENSOPRG00000011649	1 retrocopy	retro_opri_1053,
Pongo abelii	ENSPPYG00000029785	9 retrocopies	retro_pabe_1346, retro_pabe_1414, retro_pabe_1529, retro_pabe_1671, retro_pabe_3125, retro_pabe_3217, retro_pabe_334, retro_pabe_3564, retro_pabe_719,
Pan troglodytes	ENSPTRG00000014057	3 retrocopies	retro_ptro_1139, retro_ptro_1364, retro_ptro_560,
Tursiops truncatus	ENSTTRG00000006845	1 retrocopy	retro_ttru_228 ,