RetrogeneDB ID: retro_sara_15

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_256322:112090..112960(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSSARG00000007922
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: MORF4L1
• Ensembl ID: ENSSARG00000004519
• Aliases: None
• Description: mortality factor 4 like 1 [Source:HGNC Symbol;Acc:16989]

Sequence

>retro_sara_15
ATGAGTTCCAGAAAGCAGGGTTCTCAGCCTCGTGGACAACAATCTGCAGAAGAAGACAACTTTAAAAAGCCAACTAGAAG
CAACATGCAGAGAAGTAAGATGAGAGGGGCCTCCTCTGGAAAGAAGACAGCTGGCCAACAGCCGAAGAACCTTGATCCAG
CTCTCCCAGGCAGATGGGGAGGTCGCTCTGCAGAGAACCCCCCTTCGGGATCGGTGAGGAAGACCAGGAAGAACAAGCAG
AAGGCTCCTGGAAACGGAGGGGAAGGTGGCAGTACCAGCGAAGCACCTCAGCCCCCTCGGAAGAAGAGGGCACGGGCTGA
CCCCACTGTTGAGAGCGAGGAAGTATTCAAGAACCGAGTGGAAGTTAAAGTGAAGATTCCTGAAGAATTGAAGCCATGGC
TTGTTGAGGACTGGGACTTGATTACTAGGCAGAAGCAGCTGTTCCAACTCCCTGCTAAGAAAAATGTGGATGCTATCCTG
GAAGAGTACGCAGATTGCAAGCGTTCACAGGGCAATGTTGATAATAAAGAATATGCTGTTAACGAAGTTGTGGGAGGGAT
AAAAGAGTATTTCAATGTGATGTTGGGCACTCAGCTGCTCTACAAATTTGAGAGGCCCCAGTATGCTGAAATTCTCTTGG
CTCATCCTGATGCTCCTATGTCCCAGATTTATGGAGCACCTCACCTGCTGAGATTGTTTGTGAGAATTGGAGCAATGCTG
GCGTATACGCCCCTTGATGAGAAGAGCCTTGCATTACTGTTGGGCTATTTGCATGATTTCTTAAAGTATCTGTCCAAGAA
TGCTGGGTCTCTGTTTACTGCCAGTGATTACAAGGTGGCTTCTGCTGAGTACCACCGCAGAGCCCTGTGA

Alignment

ORF - retro_sara_15 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.19 %
• Parental protein coverage: 63.05 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KTKKNKQKAPGNG-DGGSTSETPQPPRKKRARVDPTVENEETFMNRVEVKVKIPEELKPWLVDDWDLITR
          KT.KNKQKAPGNG..GGSTSE.PQPPRKKRAR.DPTVE.EE.F.NRVEVKVKIPEELKPWLV.DWDLITR
Retrocopy KTRKNKQKAPGNGGEGGSTSEAPQPPRKKRARADPTVESEEVFKNRVEVKVKIPEELKPWLVEDWDLITR

Parental  QKQLFYLPAKKNVDSILEDYANYKKSRGNTDNKEYAVNEVVAGIKEYFNVMLGTQLLYKFERPQYAEILA
          QKQLF.LPAKKNVD.ILE.YA..K.S.GN.DNKEYAVNEVV.GIKEYFNVMLGTQLLYKFERPQYAEIL.
Retrocopy QKQLFQLPAKKNVDAILEEYADCKRSQGNVDNKEYAVNEVVGGIKEYFNVMLGTQLLYKFERPQYAEILL

Parental  DHPDAPMSQVYGAPHLLRLFVRIGAMLAYTPLDEKSLALLLNYLHDFLKYLAKNSATLFSASDYEVAPPE
          .HPDAPMSQ.YGAPHLLRLFVRIGAMLAYTPLDEKSLALLL.YLHDFLKYL.KN...LF.ASDY.VA..E
Retrocopy AHPDAPMSQIYGAPHLLRLFVRIGAMLAYTPLDEKSLALLLGYLHDFLKYLSKNAGSLFTASDYKVASAE

Parental  YHRKAV
          YHR.A.
Retrocopy YHRRAL

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_15 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 27 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000010988	1 retrocopy	retro_btau_137,
Canis familiaris	ENSCAFG00000014113	1 retrocopy	retro_cfam_20,
Callithrix jacchus	ENSCJAG00000002214	5 retrocopies	retro_cjac_2113, retro_cjac_2280, retro_cjac_2574, retro_cjac_3026, retro_cjac_3179,
Cavia porcellus	ENSCPOG00000003778	3 retrocopies	retro_cpor_114, retro_cpor_1409, retro_cpor_915,
Equus caballus	ENSECAG00000008091	1 retrocopy	retro_ecab_62,
Felis catus	ENSFCAG00000012197	1 retrocopy	retro_fcat_75,
Loxodonta africana	ENSLAFG00000009851	1 retrocopy	retro_lafr_62,
Myotis lucifugus	ENSMLUG00000001756	1 retrocopy	retro_mluc_324,
Monodelphis domestica	ENSMODG00000011517	2 retrocopies	retro_mdom_150, retro_mdom_158,
Oryctolagus cuniculus	ENSOCUG00000015117	2 retrocopies	retro_ocun_108, retro_ocun_21,
Otolemur garnettii	ENSOGAG00000006047	4 retrocopies	retro_ogar_1594, retro_ogar_2616, retro_ogar_2896, retro_ogar_50,
Sorex araneus	ENSSARG00000004519	1 retrocopy	retro_sara_15 ,
Sarcophilus harrisii	ENSSHAG00000018402	1 retrocopy	retro_shar_393,
Ictidomys tridecemlineatus	ENSSTOG00000013294	3 retrocopies	retro_itri_111, retro_itri_1545, retro_itri_1608,