RetrogeneDB ID: retro_tbel_2707

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_117149:48886..49367(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SRSF5
• Ensembl ID: ENSTBEG00000001972
• Aliases: None
• Description: serine/arginine-rich splicing factor 5 [Source:HGNC Symbol;Acc:10787]

Sequence

>retro_tbel_2707
ATAAGAGATACTGATCTGAAAAGAGGCTTTGGTTTTGTGGAATGTAGGGACCCGAGGGAAGCAGATGATGCTGTATGTGA
ATTTGAGGGACAGACTGCAGTGAAGGGTACTACTGAATATGCCAGGGCTCCGTCTCGAGGTGGAAGAGGTAGAGGACGTT
ACTCTGAATGTTTTAGTAGTCACGGGCCTCGAAATGATAGACGAAATGCTCCCCCTGTAAGAACAGAAAACAACTTAGGG
TTGAAGTTTTATCTTCAAGAGTCAGCTGGCAGGATCTGAAAGATTTCATGAGACAAGCTGGGAAAGTAACCTTGGCGGCT
GTGCACCGACCTAACCGAAATGAAGGGGGGTTGTGTTTGCCCCTTGCAGTAACTTGAAGAATGCTATTGAAAAACTTTCT
GGAAAGGAATTAAGTGAGAGAAAAAAAATCAAATTAATTGAAGGCAGCAAAAGACAGTGGTCAAGAAGTAGGTCTCGATC
C

Alignment

ORF - retro_tbel_2707 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.48 %
• Parental protein coverage: 58.18 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  IRDIDLKRGFGFVEFEDPRDADDAVYELDGKELCSERVTIEHARARSRGGRGRGRYSDRFSSRRPRNDRR
          IRD.DLKRGFGFVE..DPR.ADDAV.E..G........T.E.ARA.SRGGRGRGRYS..FSS..PRNDRR
Retrocopy IRDTDLKRGFGFVECRDPREADDAVCEFEGQT--AVKGTTEYARAPSRGGRGRGRYSECFSSHGPRNDRR

Parental  NAPPVRTEN-RLIVENLSSRVSWQXXXDFMRQAGEV-FADAHRPKLNEG-VVEFASYGDLKNAIEKLSGK
          NAPPVRTEN..L.VE.LSSRVSWQ...DFMRQAG.V..A..HRP..NEG..V.FA....LKNAIEKLSGK
Retrocopy NAPPVRTEN<QLRVEVLSSRVSWQDLKDFMRQAGKVTLAAVHRPNRNEG<GVVFAPCSNLKNAIEKLSGK

Parental  EIN-GRKIKLIEGSKRH-SRSRSRS
          E.......KLIEGSKR..SRSRSRS
Retrocopy ELSEXXXXKLIEGSKRQWSRSRSRS

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Tupaia belangeri was not studied using RNA-Seq expression data.

ChIP-Seq

Tupaia belangeri was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_tbel_2707 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_2707 was not experimentally validated.

Homology

Retrocopy orthology:

Tupaia belangeri 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 7 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000001521	2 retrocopies	retro_meug_1173, retro_meug_2182,
Monodelphis domestica	ENSMODG00000011362	1 retrocopy	retro_mdom_934,
Mus musculus	ENSMUSG00000021134	1 retrocopy	retro_mmus_2396,
Rattus norvegicus	ENSRNOG00000005513	1 retrocopy	retro_rnor_2900,
Tupaia belangeri	ENSTBEG00000001972	1 retrocopy	retro_tbel_2707 ,
Tupaia belangeri	ENSTBEG00000008499	1 retrocopy	retro_tbel_2602,
Tupaia belangeri	ENSTBEG00000013448	1 retrocopy	retro_tbel_383,