RetrogeneDB ID: retro_sara_521

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_230322:46207..47166(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSSARG00000005897
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: KPNA6
• Ensembl ID: ENSSARG00000008510
• Aliases: None
• Description: karyopherin alpha 6 (importin alpha 7) [Source:HGNC Symbol;Acc:6399]

Sequence

>retro_sara_521
CTCCTTACCAAGTCCACACGACTGACAATGACGCGAATGCAGTCTGGGCCCTGTCAAACCTCTGCCGAGGGAAGAATCCA
ACCCCTGAGTTTGCAAAGGTCTCCCCTTGTTTGCCTGTGCTATCTCGCCTACTCTTCAGCAGTGACTCAGACTTGCTGGC
AGATGCTTGCTGGGCCCTTTCTTATCTGTCTGATGGCCCCAACGAGAAGATCCAGGCAGTCATAGACTCTGGAGTATGCC
GGAGATTGGTGGAACTACTAATGCACAATGATTACAAAGTGGCCTTTCCAGCCCTGAGAGCTGTGGGAAACATCGTCACT
GGGGATGACATCCAGACCCAGGTCATTCTTAACTGCTCGGCTCTCCCTTGCCTCCTCCACTTGCTGAGCAGTCCCAAGGA
GTCCGTCCGGAAGGAAGCATGCTGGACCATTTCAAATATTACTGCTGGCAACAGAGCTCAGATACAGGCTGTCATAGATG
CAAATATCTTCCCTGTGTTGATTGAAGTCCTTCAGAAAGCAGAGTTCCATACAAGGAAAGAAGCAGCATGGGCCATCACA
AATGCCACATCAGGAGGAACCCCTGAGCAAATCAGATACCTGGTCTCACTGGGCTGCATCAAACCCCTCTGTGACCTGCT
GACTGTGATGGATTCAAAGATAGTGCAAGTAGCCCTCAATGGATTGGAGAACATTCTTCGGCTTGGCGAGCAAGAAGGCA
AGCGCAGTGGCTCAGGGGTCAATCCCTACTGTGGCCTCATTGAGGAAGCCTACGGCTTGGATAAAATTGAGTTTCTCCAG
AGCCATGAGAATCAAGAAATCTACCAGAAGGCATTTGACCTCATTGAGCACTATTTTGGTGTAGAAGATGATGATAGCAG
CTTGGCTCCCCAAGTGGATGAAACGCAGCAACAGTTCATCTTCCAGCAGCCTGAGGCCCCCATGGAGGGCTTCCAGCTA

Alignment

ORF - retro_sara_521 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.13 %
• Parental protein coverage: 59.59 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LLTKSTRLTMTR-NAVWALSNLCRGKNPPPEFAKVSPCLPVLSRLLFSSDSDLLADACWALSYLSDGPNE
          LLTKSTRLTMTR.NAVWALSNLCRGKNP.PEFAKVSPCLPVLSRLLFSSDSDLLADACWALSYLSDGPNE
Retrocopy LLTKSTRLTMTR<NAVWALSNLCRGKNPTPEFAKVSPCLPVLSRLLFSSDSDLLADACWALSYLSDGPNE

Parental  KIQAVIDSGVCRRLVELLMHNDYKVASPALRAVGNIVTGDDIQTQVILNCSALPCLLHLLSSPKESIRKE
          KIQAVIDSGVCRRLVELLMHNDYKVA.PALRAVGNIVTGDDIQTQVILNCSALPCLLHLLSSPKES.RKE
Retrocopy KIQAVIDSGVCRRLVELLMHNDYKVAFPALRAVGNIVTGDDIQTQVILNCSALPCLLHLLSSPKESVRKE

Parental  ACWTISNITAGNRAQIQAVIDANIFPVLIEILQKAEFRTRKEAAWAITNATSGGTPEQIRYLVSLGCIKP
          ACWTISNITAGNRAQIQAVIDANIFPVLIE.LQKAEF.TRKEAAWAITNATSGGTPEQIRYLVSLGCIKP
Retrocopy ACWTISNITAGNRAQIQAVIDANIFPVLIEVLQKAEFHTRKEAAWAITNATSGGTPEQIRYLVSLGCIKP

Parental  LCDLLTVMDSKIVQVALNGLENILRLGEQEGKRSGSGVNPYCGLIEEAYGLDKIEFLQSHENQEIYQKAF
          LCDLLTVMDSKIVQVALNGLENILRLGEQEGKRSGSGVNPYCGLIEEAYGLDKIEFLQSHENQEIYQKAF
Retrocopy LCDLLTVMDSKIVQVALNGLENILRLGEQEGKRSGSGVNPYCGLIEEAYGLDKIEFLQSHENQEIYQKAF

Parental  DLIEHYFGVEDDDSSLAPQVDETQQQFIFQQPEAPMEGFQL
          DLIEHYFGVEDDDSSLAPQVDETQQQFIFQQPEAPMEGFQL
Retrocopy DLIEHYFGVEDDDSSLAPQVDETQQQFIFQQPEAPMEGFQL

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_521 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Microcebus murinus	ENSMICG00000001434	1 retrocopy	retro_mmur_1347,
Macaca mulatta	ENSMMUG00000008455	1 retrocopy	retro_mmul_463,
Sorex araneus	ENSSARG00000008510	1 retrocopy	retro_sara_521 ,