RetrogeneDB ID: retro_sara_691

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_259150:48574..48985(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZCCHC17
• Ensembl ID: ENSSARG00000007944
• Aliases: None
• Description: zinc finger, CCHC domain containing 17 [Source:HGNC Symbol;Acc:30246]

Sequence

>retro_sara_691
ATGAAAAATGATAGAATAAAAGTATCCCTCTCCATGAAAGTTGTCAACCAAGGGACTGGAAAAGACCTCGATCCCAACAA
TGTTATCATTGAGCAAGAAGAGAGGCGGAGGCGGTCATTCCAGGATTACACTGGACAGAAGATCACCCTCGAGGCTGTCC
TGAACACTACGTGCAAGAAGTGTGGATGTAAAGGGCACTTTGCAAAGGATTGCTTCATGCAACCAGGAGGGACCAAATAC
TCTCTGATACCTGATGAGGAAGAAGAGAAGGAAGAGACAAAGTCAGCAGAGTTAGAGAAGCCTGACCCTACAAGGAATTC
TTCTAGAAAAAGAAAGAAGGAAAAGAAGAAAAAGAAACACAGAGACAGGAAATCATCTGACTCTGACAGCTCAGACTCTG
AGAGTGATACA

Alignment

ORF - retro_sara_691 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.97 %
• Parental protein coverage: 56.85 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MKNDRIKVSLSMKVVNQGTGKDLDPNNVIIEQEERRRRSFQDYTGQKITLEAVLNTTCKKCGCKGHFAKD
          MKNDRIKVSLSMKVVNQGTGKDLDPNNVIIEQEERRRRSFQDYTGQKITLEAVLNTTCKKCGCKGHFAKD
Retrocopy MKNDRIKVSLSMKVVNQGTGKDLDPNNVIIEQEERRRRSFQDYTGQKITLEAVLNTTCKKCGCKGHFAKD

Parental  CFMQPGGTKYSLIPDEEEEKEETKSAELEKPDPTRNSSRKRKKEKKKKKHRDRKSSDSDSSDSESDT
          CFMQPGGTKYSLIPDEEEEKEETKSAELEKPDPTRNSS...........HRDRKSSDSDSSDSESDT
Retrocopy CFMQPGGTKYSLIPDEEEEKEETKSAELEKPDPTRNSSXXXXXXXXXXXHRDRKSSDSDSSDSESDT

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_691 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 14 parental genes, and 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000017710	1 retrocopy	retro_amel_1501,
Bos taurus	ENSBTAG00000016818	2 retrocopies	retro_btau_168, retro_btau_273,
Canis familiaris	ENSCAFG00000011131	2 retrocopies	retro_cfam_485, retro_cfam_835,
Dasypus novemcinctus	ENSDNOG00000000509	1 retrocopy	retro_dnov_2548,
Dipodomys ordii	ENSDORG00000004128	1 retrocopy	retro_dord_200,
Echinops telfairi	ENSETEG00000007421	1 retrocopy	retro_etel_1280,
Loxodonta africana	ENSLAFG00000015364	1 retrocopy	retro_lafr_534,
Myotis lucifugus	ENSMLUG00000000594	1 retrocopy	retro_mluc_2176,
Monodelphis domestica	ENSMODG00000017082	1 retrocopy	retro_mdom_252,
Mustela putorius furo	ENSMPUG00000015442	1 retrocopy	retro_mputfur_680,
Mus musculus	ENSMUSG00000028772	1 retrocopy	retro_mmus_2150,
Otolemur garnettii	ENSOGAG00000013749	1 retrocopy	retro_ogar_1225,
Sorex araneus	ENSSARG00000007944	1 retrocopy	retro_sara_691 ,
Ictidomys tridecemlineatus	ENSSTOG00000003825	1 retrocopy	retro_itri_405,