RetrogeneDB ID: retro_sara_522

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_230526:182367..183729(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: LTA4H
• Ensembl ID: ENSSARG00000001882
• Aliases: None
• Description: leukotriene A4 hydrolase [Source:HGNC Symbol;Acc:6710]

Sequence

>retro_sara_522
GTGTCTGTTCCAAAAGAACTAATGGCACTTATGAGTGCCATTCGTGAAGGAGAAGCACCGGACCCAGAAGACCCAAGTAG
AAGAGTATACAGATTCAGATAAAACATTCTGATACCCTGCTACCTGATTGCCTTAGTTGTTGGAACTTTAGAAAGCAGAC
AAATTGGCCCAAGAACCTTGGTATGATCTGAGAATGAGCAAGTAAAAAAGTCTGATCTCGAATTTTCTGAGACTGAATCT
ATGCTTAAAATTGCAGAAGAACTGGGAGGCCTGTATGTTTGGGGGCAGTATGACCTGTTGGTCTTGCCCCCATCCTTCCC
TTATGGTGGCATGGAAAATCCTTGCCTCACATTAGTAACTCCTACTCTCCTGGCAGGTGACACATCACTCTCCAATGTTA
TTGCACATGAAATATCTCATAGCTGGACAGGAAATCTTGTAAACAAGACTTGGGATCACTTTTGGTTAAATGAAAGACAT
ACCATGTACTTGGAATGCCACATTTGTGGAACAATTTTTTGGTGAAAACTTCAGGCATTTTCATGCTCTGAGAGTATGGG
GAGAACTACAGAATTCGATAAAAGATCTTTGGAGATACACACCCTTTCACCAAACTTGTGGTTGATTTTGATGGGGGTAG
ACGCTGATGTCACATATTCGTCAGTGGCCCTATGAGAGGGAATTTTGCTTTACTCCTTTTAGTTGAGCAGCTTCTTGGGA
GGCCCAGAAGTTTCTCTCTGTATGTCCTGTAGGGCTAATGTTAGAGAATTTCTTTCTACAAGAAGCATAACTACTGATGA
CTGAGAGGATTTCCTGTATTCTCATTTAAAAGATAAGGTTGATGTTCTCAATCAAGTTGACTGGAATACTTGGCTCTACT
CTCCTGGACTGCCCCCTGTGAAGCCCAAGTATGATATGATTCTGACAAATGCTTGTATTGCCTTAAGTCAAAGATGGATT
ACAGCCAAGGAAGATGATCTCAGTTCATTCAATGCAGCAGACCTGAAAGATCTCTTTTCTCATCAGTTGAATGAATTTTT
AGCACAGATGCTTCAGAAAGCACCTCTTCCATTGAGGCTTATCAAGCAAATGCAAGAGGTGTACAATTTCAATGCCATTT
ATAATTCTGAAATGCGATTCAGATGGTTACTGCTTTGCATTCAATTGAAGTGGGAGGAGGCAATTCCATTGGCTTTAAAA
ATGGCGACTGAACAAGGAAGAATAAAATTTACACAACCTTTATTCAAGGACCTCGGAGCCTTTGACAAATCCCATGACCA
GATCATGTCTGCCTACCAACAGCAAAAAGCAAGTATGCACCCGGTGACCGCCATGCTGGTGGGCAAGGATCTGAAAGTGA
AT

Alignment

ORF - retro_sara_522 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.97 %
• Parental protein coverage: 73.81 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  VSVPKELVALMSAIREGEAPDPEDPSRKVYRFRQNVPIPCYLIALVVGALESRQIGPRTLVWSEKEQVEK
          VSVPKEL.ALMSAIREGEAPDPEDPSR.VYRFR.N..IPCYLIALVVG.LESRQIGPRTLV.SE.EQV.K
Retrocopy VSVPKELMALMSAIREGEAPDPEDPSRRVYRFR*NILIPCYLIALVVGTLESRQIGPRTLV*SENEQVKK

Parental  SAREFSETESMLKIAEELGGPYVWGQYDLLVLPPSFPYGGMENPCLTFVTPTLLAGDKSLSNVIAHEISH
          S..EFSETESMLKIAEELGG.YVWGQYDLLVLPPSFPYGGMENPCLT.VTPTLLAGD.SLSNVIAHEISH
Retrocopy SDLEFSETESMLKIAEELGGLYVWGQYDLLVLPPSFPYGGMENPCLTLVTPTLLAGDTSLSNVIAHEISH

Parental  SWTGNLVTNKTWDHFWLNEGHTVYLERHICGRLF-GENFRHFHALGGWGELQNSIKT-FGDTHPFTKLVV
          SWTGNLV.NKTWDHFWLNE.HT.YLE.HICG..F.GENFRHFHAL..WGELQNSIK..FGDTHPFTKLVV
Retrocopy SWTGNLV-NKTWDHFWLNERHTMYLECHICGTIF>GENFRHFHALRVWGELQNSIKD>FGDTHPFTKLVV

Parental  D-LTGVDPDVAYSSV-PYEK-GFALLFYLEQLLG-GPEVFLGF-LKAYVKKF-SYKSITTDDWKDFLYSH
          D.L.GVD.DV.YSSV.PYE...FALL...EQLLG.GPEV.L.....A.V..F.S..SITTDD..DFLYSH
Retrocopy D>LMGVDADVTYSSV>PYER>NFALLLLVEQLLG>GPEVSLCMSCRANVREFLSTRSITTDD*EDFLYSH

Parental  FKDKVDVLNQVDWNTWLYSPGLPPVKPKYDMTLTNACIALSQRWITAKEEDLSSFSAADLKDLSSHQLNE
          .KDKVDVLNQVDWNTWLYSPGLPPVKPKYDM.LTNACIALSQRWITAKE.DLSSF.AADLKDL.SHQLNE
Retrocopy LKDKVDVLNQVDWNTWLYSPGLPPVKPKYDMILTNACIALSQRWITAKEDDLSSFNAADLKDLFSHQLNE

Parental  FLAQMLQKAPLPLGHIKRMQEVYNFNAIYNSEIRFRWLRLCIQSKWEEAIPLALKMATEQGRMKFTRPLF
          FLAQMLQKAPLPL..IK.MQEVYNFNAIYNSE.RFRWL.LCIQ.KWEEAIPLALKMATEQGR.KFT.PLF
Retrocopy FLAQMLQKAPLPLRLIKQMQEVYNFNAIYNSEMRFRWLLLCIQLKWEEAIPLALKMATEQGRIKFTQPLF

Parental  KDLAAFDKSHDQAVSAYQQHKASMHPVTAMLVGKDLKVD
          KDL.AFDKSHDQ..SAYQQ.KASMHPVTAMLVGKDLKV.
Retrocopy KDLGAFDKSHDQIMSAYQQQKASMHPVTAMLVGKDLKVN

Legend:

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

Expression

RNA-Seq

Sorex araneus was not studied using RNA-Seq expression data.

ChIP-Seq

Sorex araneus was not studied using ChIP-Seq data.

EST

Sorex araneus was not studied using EST data.

TSS

Sorex araneus was not studied using FANTOM5 data.

Lab

retro_sara_522 was not experimentally validated.

Homology

Retrocopy orthology:

Sorex araneus 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Myotis lucifugus	ENSMLUG00000013624	1 retrocopy	retro_mluc_1107,
Sorex araneus	ENSSARG00000001882	1 retrocopy	retro_sara_522 ,