RetrogeneDB ID: retro_sara_122

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: GeneScaffold_3805:165769..167027(-)
• Located in intron of: ENSSARG00000001281

Retrocopy information

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

Parental gene information

• Parental gene symbol: HAT1
• Ensembl ID: ENSSARG00000005620
• Aliases: None
• Description: histone acetyltransferase 1 [Source:HGNC Symbol;Acc:4821]

Sequence

>retro_sara_122
ATGGCGGGATTTGGTGCTATGGAGAAATTTTTGGTTGAATACAAGAGTGCAGTGGAGAAGAAACTGGCAGAATACAAATG
TAATACCAATACAGCAATTGAATTAAAATTAGCTCGTTTTCCTGAAGATCTTGAGAATGACATTAGAACTTTCTTTCCTG
AATATACCCATCAACTCTTTGGGGATGATGAAACTGCTTTTGGTTACAAGGGTCTGAAGATCCTGTTATATTATATTGCT
GGCAGCCTGTCAACTATGTTCCGTGTTGAATATGCATCTAAAGTTGATGAAAACTTTGACTGTGTAGAGGCAGATGATGT
CGAGGGAAAAATTAGACAGATCATTCCACCTGGATTTTGCACAAACATGAATGATTTTCTTTCATTGCTGGAAAAAGAAG
TTGATTTCAAACCATTTGGAACCTTACTTCATACTTACTCTGTTCTCAGTCCTACAGGAGGAGAAAACTTTACCTTTCAA
ATATATAAGGCTGACATGACATGTAGAGGCTTTCGAGAATATCATGAAAGGCTTCAGACCTTTTTGATGTGGTTTATTGA
AACTGCTAGCTTTATTGACGTGGATGATGAAAGATGGCACTACTTTCTAGTTATTTGAGAAGTATAATAAGGATGGAGCT
ACGCTCTTTGCGACCGTAGGCTACATGACAGTCTATAATTACTATGTGTACCCAGACAAAACCCGGCCACGTGTAAGTCA
GATGCTGATACTGACTCCATTCCAAGGTCAAGGCCATGGTGCTCAACTTCTTGAAACAGTTCATAGATACTACATTACAT
CTCCTTCTGTTCTTGGTATTACAGCGGAAGACCCATCCAAAAGTTATGTGAAATTAAGAGACTTTGTACTTGTGAAACTG
TGTCAAGATTTGCCCTGTTTTTCTCAGGAAAAGTTAATGCAAGGATTCACTGAAGATATGGCAATAGAGGCACAACAGAA
GTTCAAAATAAATAAGCAACATGCTAGATGGGTTTATGAAATTCTTCGACTACTGGTGACTGACATGAGTGATGCTGAAC
AATACAGAAGCTATGGACTGGATATTAAAAGAAGATTAATTAGCCCATATAAGAAAAAGCAGAGAGATCTTGCGAAGATG
AGAAAATGTCTCAGACCAGAAGAACTGACAAACCAGATGAACCAAGTAGAAATAAGCATGCAACATGAATAGCTGGTAGA
AAATTTTCAAGAACTTGTAGAAGATTACAGACATGTTATTGAACGCTTTGCTCAAGAG

Alignment

ORF - retro_sara_122 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.67 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAGFGAMEKFLVEYKSAVEKKLAEYKCNTNTAIELKLVRFPEDLENDIRTFFPEYTHQLFGDDETAFGYK
          MAGFGAMEKFLVEYKSAVEKKLAEYKCNTNTAIELKL.RFPEDLENDIRTFFPEYTHQLFGDDETAFGYK
Retrocopy MAGFGAMEKFLVEYKSAVEKKLAEYKCNTNTAIELKLARFPEDLENDIRTFFPEYTHQLFGDDETAFGYK

Parental  GLKILLYYIAGSLSTMFRVEYASKVDENFDCVEADDVEGKIRQIIPPGFCTNTNDFLSLLEKEVDFKPFG
          GLKILLYYIAGSLSTMFRVEYASKVDENFDCVEADDVEGKIRQIIPPGFCTN.NDFLSLLEKEVDFKPFG
Retrocopy GLKILLYYIAGSLSTMFRVEYASKVDENFDCVEADDVEGKIRQIIPPGFCTNMNDFLSLLEKEVDFKPFG

Parental  TLLHTYSVLSPTGGENFTFQIYKADMTCRGFREYHERLQTFLMWFIETASFIDVDDERWHYFLV-FEKYN
          TLLHTYSVLSPTGGENFTFQIYKADMTCRGFREYHERLQTFLMWFIETASFIDVDDERWHYFLV.FEKYN
Retrocopy TLLHTYSVLSPTGGENFTFQIYKADMTCRGFREYHERLQTFLMWFIETASFIDVDDERWHYFLV>FEKYN

Parental  KDGATLFATVGYMTVYNYYVYPDKTRPRVSQMLILTPFQGQGHGAQLLETVHRYYITSPSVLDITAEDPS
          KDGATLFATVGYMTVYNYYVYPDKTRPRVSQMLILTPFQGQGHGAQLLETVHRYYITSPSVL.ITAEDPS
Retrocopy KDGATLFATVGYMTVYNYYVYPDKTRPRVSQMLILTPFQGQGHGAQLLETVHRYYITSPSVLGITAEDPS

Parental  KSYVKLRDFVLVKLCQDLPCFSREKLMQGFSEDMAIEAQQKFKINKQHARRVYEILRLLVTDMSDAEQYR
          KSYVKLRDFVLVKLCQDLPCFS.EKLMQGF.EDMAIEAQQKFKINKQHAR.VYEILRLLVTDMSDAEQYR
Retrocopy KSYVKLRDFVLVKLCQDLPCFSQEKLMQGFTEDMAIEAQQKFKINKQHARWVYEILRLLVTDMSDAEQYR

Parental  SYRLDIKRRLISPYKKKQRDLAKMRKCLRPEELTNQMNQIEISMQHEQLEESFQELVEDYRRVIERLAQE
          SY.LDIKRRLISPYKKKQRDLAKMRKCLRPEELTNQMNQ.EISMQHE.L.E.FQELVEDYR.VIER.AQE
Retrocopy SYGLDIKRRLISPYKKKQRDLAKMRKCLRPEELTNQMNQVEISMQHE*LVENFQELVEDYRHVIERFAQE

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_122 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
Dasypus novemcinctus	ENSDNOG00000011848	1 retrocopy	retro_dnov_2372,
Oryctolagus cuniculus	ENSOCUG00000005313	1 retrocopy	retro_ocun_1785,
Sorex araneus	ENSSARG00000005620	1 retrocopy	retro_sara_122 ,