RetrogeneDB ID: retro_ttru_857

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_380:349243..349774(+)
• Located in intron of: ENSTTRG00000010239

Retrocopy information

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

Parental gene information

• Parental gene symbol: SAR1B
• Ensembl ID: ENSTTRG00000016864
• Aliases: None
• Description: SAR1 homolog B (S. cerevisiae) [Source:HGNC Symbol;Acc:10535]

Sequence

>retro_ttru_857
TATAAGAAAACTGGTAAATTGGTATTTCTTGGATTGGATAATGTGGGAAAAACAACGTTGCTACACATGCTAAAAGATGA
CGGACTTGGACAACACGTCCCAATGTTACATCCCACTTCAGAAGAACTAACCATTGCTGGCATGACCTTTACAACTTTTG
ATCTGGGTGGACACGTTCAAGCTCGAAGAGTGTGGAAAAACTACCTTCCTGCTATCAACGGCATTGTACTTCTGGTAGAT
TGTGTAGACCATGAAAGGCTGTTAGAATCAAAAGAAGAACTTCATTCACTAATGACAGATGAAACTGTTGCTAATGTGCC
TATACTGATTCTTGGGAATAAGACTGACAGGCCTGAAGCCATCAGTGAAGAGAGGTTGCGAGAGATGTTTGGTTTATATG
GTCAGACGACAGGAAAAGGCAGTGTGTCTCTGAAAGAACTGAATGCCCAGCCCTTAGAAGTTTTCATGTGTCGTGTGCTC
AAAAGACGAGGCTATGCAGAAGGCTTCCGCTGGATGGCGCAGTACATTGAT

Alignment

ORF - retro_ttru_857 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.79 %
• Parental protein coverage: 89.39 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  YKKTGKLVFLGLDNAGKTTLLHMLKDDRLGQHVPTLHPTSEELTIAGMTFTTFDLGGHVQARRVWKNYLP
          YKKTGKLVFLGLDN.GKTTLLHMLKDD.LGQHVP.LHPTSEELTIAGMTFTTFDLGGHVQARRVWKNYLP
Retrocopy YKKTGKLVFLGLDNVGKTTLLHMLKDDGLGQHVPMLHPTSEELTIAGMTFTTFDLGGHVQARRVWKNYLP

Parental  AINGIVFLVDCADHERLLESKEELDSLMTDETVANVPILILGNKIDRPEAISEERLREMFGLYGQTTGKG
          AINGIV.LVDC.DHERLLESKEEL.SLMTDETVANVPILILGNK.DRPEAISEERLREMFGLYGQTTGKG
Retrocopy AINGIVLLVDCVDHERLLESKEELHSLMTDETVANVPILILGNKTDRPEAISEERLREMFGLYGQTTGKG

Parental  SVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQYID
          SVSLKELNA.PLEVFMC.VLKR.GY.EGFRWMAQYID
Retrocopy SVSLKELNAQPLEVFMCRVLKRRGYAEGFRWMAQYID

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_857 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_857 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 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000017849	1 retrocopy	retro_amel_1075,
Dasypus novemcinctus	ENSDNOG00000013784	3 retrocopies	retro_dnov_1584, retro_dnov_1804, retro_dnov_919,
Loxodonta africana	ENSLAFG00000001021	1 retrocopy	retro_lafr_1043,
Oryctolagus cuniculus	ENSOCUG00000008250	1 retrocopy	retro_ocun_1004,
Pteropus vampyrus	ENSPVAG00000012433	2 retrocopies	retro_pvam_1219, retro_pvam_725,
Tursiops truncatus	ENSTTRG00000016864	2 retrocopies	retro_ttru_1225, retro_ttru_857 ,