RetrogeneDB ID: retro_sara_731

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_41458:715..1753(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSSARG00000012209
• Aliases: None
• Description: None

Sequence

>retro_sara_731
AGTGAAGATGAGAATGAAGATAAATATACAGATGACATTGACATGCCTGGACAGAACTTTGATTCCAAGAGACAGATCAC
TGTCTGGAATCTCAGTATTCAAGAAGACATTACAAAATATTTGCAGAACTTAAATCCAAATTCTGCCTACTATGATCCAA
AAACCAGAGCAATGAGAGAGAATCCCTATTCCAATGCAGGAATGAATCTAGACAAAGTGAGCTATGCAGGCGATAACTTC
GTTAGATATACGGGTGATACCATTTCAATGGCTCAGACACAGTTGTTCGCTTGGGAAGCCTCTGACAAAGAATCAGAAGT
GCATCCACAAGCTGATCCTACTAAATTCAACCTGTTGTAGAAGTCCTTCAAAGTAAAAAAAGAAGACTTCCAAGAGCAGC
AGAAAGCCAGTAACTTAGAGAAGAATGGTGGCCAAGAACACCTGGACGCCCCTCCAGCAGAACTGCTCTTGGGTCAAACC
GAAGACTATGTAGAATACTCAAGACATGGGACCATCATAAAAAGGCAGGAACAGGCTGTCACCTGCTCCAAATACGAGGA
GGATGTGAAGATCCACAACCACACTCATATTTGGGGATCTTACTGGAAAGATGACAGATGGGGATTCAAGTGTTGTCACT
CCTTTTTCAAGTACTCCTTCTGTACTGGAGAGGCTGGGAAGGAGGTTGCAAATTCAGAGGAATATATTCTAAATGATACA
ACTGAAGAAGAATCAGCGAAAAAGCCTCAAACTCTTATGGAGATACATCAGGAAAAACTAAAAGAAGAGAAAAAGAAGAA
GACACGTCGAAAGAGTAGTTCAGACAGTGATGATGAAGAAAAGAAACAAAAATCTGAAGAAGGTGCTGAATGCCATGGAG
GCCTGCCTTCTTCGTGTCAAGGAGATCATGCAGATCGATGAGAGGAAGCGGCCATACAATAGTATCTATAAACCCGGGAG
CCCACAGAGGAAGAAATGGAGGCCTACAGAATGAAATGCCAGAGGCCAGACGACCCTATGGCCTCCTTCTTAGGACAG

Alignment

ORF - retro_sara_731 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.19 %
• Parental protein coverage: 60.0 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  SEDEDEDKYADDIDMPGQNFDSKRRITVRNLRIREDIAKYLRNLDPNSAYYDPKTRAMRENPYANAGKNP
          SEDE.EDKY.DDIDMPGQNFDSKR.ITV.NL.I.EDI.KYL.NL.PNSAYYDPKTRAMRENPY.NAG.N.
Retrocopy SEDENEDKYTDDIDMPGQNFDSKRQITVWNLSIQEDITKYLQNLNPNSAYYDPKTRAMRENPYSNAGMNL

Parental  DEVSYAGDNFVRYTGDTISMAQTQLFAWEAYDKGSEVHLQADPTKLELLYKSFKVKKEDFKEQQKESILE
          D.VSYAGDNFVRYTGDTISMAQTQLFAWEA.DK.SEVH.QADPTK..LL.KSFKVKKEDF.EQQK.S.LE
Retrocopy DKVSYAGDNFVRYTGDTISMAQTQLFAWEASDKESEVHPQADPTKFNLL*KSFKVKKEDFQEQQKASNLE

Parental  KYGGQEHLDAPPAELLLAQTEDYVEYSRHGTVIKGQERAVACSKYEEDVKIHNHTHIWGSYWKDGRWGYK
          K.GGQEHLDAPPAELLL.QTEDYVEYSRHGT.IK.QE.AV.CSKYEEDVKIHNHTHIWGSYWKD.RWG.K
Retrocopy KNGGQEHLDAPPAELLLGQTEDYVEYSRHGTIIKRQEQAVTCSKYEEDVKIHNHTHIWGSYWKDDRWGFK

Parental  CCHSFFKYSYCTGEAGKEVANSEECILNDTTEEESVKKPQTLMEIHQEKLKEEKKKKKKKKKHRKSSSDS
          CCHSFFKYS.CTGEAGKEVANSEE.ILNDTTEEES.KKPQTLMEIHQ.............K....S.SD.
Retrocopy CCHSFFKYSFCTGEAGKEVANSEEYILNDTTEEESAKKPQTLMEIHQXXXXXXXXXXXRRKS--SSDSDD

Parental  DDEEKKHE-KLKKALNAEEARLLHVKEIMQIDERKRPYNSIYE-TREPTEEEMEAYRMKRQRPDDPMASF
          .....K.E.K...A..A...R.......MQIDERKRPYNSIY..TREPTEEEMEAYRMK.QRPDDPMASF
Retrocopy EEKKQKSE>KVLNAMEACLLRVKEI---MQIDERKRPYNSIYK<TREPTEEEMEAYRMKCQRPDDPMASF

Parental  LGQ
          LGQ
Retrocopy LGQ

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_731 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 7 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000004484	1 retrocopy	retro_cpor_883,
Dipodomys ordii	ENSDORG00000006239	3 retrocopies	retro_dord_125, retro_dord_140, retro_dord_563,
Ficedula albicollis	ENSFALG00000013473	1 retrocopy	retro_falb_12,
Myotis lucifugus	ENSMLUG00000003091	2 retrocopies	retro_mluc_2250, retro_mluc_2251,
Oryctolagus cuniculus	ENSOCUG00000011743	1 retrocopy	retro_ocun_818,
Otolemur garnettii	ENSOGAG00000012301	1 retrocopy	retro_ogar_1519,
Sorex araneus	ENSSARG00000012209	2 retrocopies	retro_sara_409, retro_sara_731 ,