RetrogeneDB ID: retro_mluc_404

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: AAPE02059453:41259..43696(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SF3B1
• Ensembl ID: ENSMLUG00000000840
• Aliases: None
• Description: None

Sequence

>retro_mluc_404
ATGGTGAAGATTGCCAAGACTCACGAAGATATCGAAGCACAGATTCGAGAAATTCAAGGGAAGAAAGTAGCTCTTGATGA
AGCTCAAGGAGTGGGCCTTGATTCTACAGGTTATTATGACCAGGAAATATATGGTGGAAGTGACAGCAGATTTGCTGGGT
ATGTGACATCAATTGCTGCAACTGAACTTGAAGATGATGAGGATGACTACTCATCATCTACAAGTTTGCTTGGTCAGAAG
AAACCAGGATATCATGCCCCTGTGGCATTGCTTAATGATATACCACAGTCAATGGAACAGTATGATCCATTTGCTGAGCA
CTGACGTCCAAAGATTGCTGACCGGGAAGATAAATACAAAAAGCACAGGCGGGCCAAGATAATTTCCCCAGAGCGTCTTG
ATCCTTTTGCAGATGGAGAGAAGACCCCTGACCCTAAAATGAATGCTAGAACTTATATGGATGTAATGCGAGAGCAGCAT
TTGACTAAAGAAGAGAGAGACATTAGGCAACAACTAGCAGAAAAAGCTAAAGCTGGAGAACTGAAAGTCGTCAATGGAGC
AGCAGCGTCCCAGCCTCCCTCAAAACGAAAACGCCGTTGGGATCAAACAGCTGATCAGACTCCTGGTGCAACTCCCAGAA
AGCTGCCATGTTGGGATCAAGCAGAGACCCCTGGACATACCTGTTCCTTAAGATGGGATGAGACACCAGGCAGTGCAAAG
GGAAGTGAGACTCCTAGAGCAACCCCACGCTCAAAAATATGGGATCCTACACCAAGTCACACACCTGCGGAAGCTGCTAC
TCCTGGACTCGGGGATACACCAGGCCATGCAACACCAGGCCATGGAGGCGCAACTTCCAGTGCTCGTAAAAACCGATGGG
ATGAGACCCCCAAGACAGAAAGAGATACTCCTGGGCATGGAAGTGGATGGGCTGAGATGCCTCGAACAGATCGAGGTGGA
GATTCCATTGGTGAAACACCCACTCCTGGAGCCAGTAAAAGGAAATCACGTTGGGACGAAACACCAGCCAGTCAGATGGG
TGGAAGCACTCCTGTTCTGACCCCTGGGAAAACACCACTTGGCACACCAGCCATGAACATGGCTACCCCTACTCCAGGTC
ACATAATGAGTATGACTCCTGAACAGCTTCAGGCTTGGCGTTGGGAGAGAGAAATTGCTGAGAGAAATCGCTCACTTTCT
GATGACGACTTAGATGCCATGTTTCCAGAAGGATATAAGGTACTTCCTCCTCCAGCTGGTTATGCCCCTATTCGAACTCC
AGCTCGAAAGCTCACAGCCACTCCAACACCTCTGGGTGGTATGACTGGTTTCCACATGCAAACTGAAGACAGAACTATGC
AAAGTGTCAACGACCAACCATCTGGAAATCTTCCCTTTTTAAAACCTGACGACATTCAGTACTTTGATAAACTTTTGGTT
GATGTTGATGAATCAACACTTAGTCCAGAAGAGCAAAAAGAGAGAAAAATTATGAAATTGCTTTTAAAAATTAAGAATGG
TACACCCCCAATGAGAAAGGCTGCCTTGCATCAGATTACCGATAAAACTCGTGAATTTGTAGCTGGTCCTTTGCTTAATC
AGATCCTTCCTCTGCTGATGTCACCTACACTTGAGGATCAAGAACGTCATTTGCTTGTCAAAGTTATTGATAGAATATTA
TACAACTTGATGACTTACTTTGACCCTATGTGCATAAGATCCTTGTGGTCATTGAACCATTGCTGATTGATGAAGATTAC
TATGCTAGAGTGGAAGGCCGAGAGCTTATTTCTAATTTGGCAAAGGCTGCTGGTCTGGCTACTATGATCTCCACCATGAG
ACCCGATAGAGACAATATGGATGAATATGTTCGTAACACAACAGCTAGAGCTTTTGCTGTTGTAGCTTCTGCCCTGGGCA
TTTCTTCACTATTGCCCTTCTTAAAAGCTGTGTGCAAAAGCAAGAAGTCCTGGCAAGCGAGACACACTGGTATTAAGATT
GTACAGCAGATAGCTATTCTGGTGGGCTGTACCATCTTGCCACATCTGAGAAGTTTAGTTGAAATCATTGAACACAGTCT
TGTGGATGAGCAGCAGAAAGTTCGGATCATTAGTGCATTGGCCATCGCAACCTTGGCTGAAGCAGCAACTCCTTATGGTA
TTGAATCTTTTGATTCTGTGTTGAAGCCTCTATGGAAGGGTATCCGCCAATACAGAGGAAGGGGTCTGGCTGCCTTCTTA
AAGGCTATTGGGTATCTGACTCCTCTCATGGATGCAGAATATGCCAACTACTATACTAGAGAAGTGATGCTAATCCTTAT
TCGAGAATTCCAATCTCCTGATGAAGAAATGAAGACAGTGTGCTGAAGGTGGTAAATCAGTGCTGTGGAACGGATGGTGT
AGAAGCAAACTACATTAAAATAGAGATTCTTCTTCCC

Alignment

ORF - retro_mluc_404 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.37 %
• Parental protein coverage: 62.35 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MAKIAKTHEDIEAQIREIQGKKAALDEAQGVGLDSTGYYDQEIYGGSDSRFAGYVTSIAATELEDDDDDY
          M.KIAKTHEDIEAQIREIQGKK.ALDEAQGVGLDSTGYYDQEIYGGSDSRFAGYVTSIAATELEDD.DDY
Retrocopy MVKIAKTHEDIEAQIREIQGKKVALDEAQGVGLDSTGYYDQEIYGGSDSRFAGYVTSIAATELEDDEDDY

Parental  SSSTSLLGQKKPGYHAPVALLNDIPQSTEQYDPFAEHRPPKIADREDEYKKHRRTMIISPERLDPFADGG
          SSSTSLLGQKKPGYHAPVALLNDIPQS.EQYDPFAEH..PKIADRED.YKKHRR..IISPERLDPFADG.
Retrocopy SSSTSLLGQKKPGYHAPVALLNDIPQSMEQYDPFAEH*RPKIADREDKYKKHRRAKIISPERLDPFADGE

Parental  KTPDPKMHARTYMDVMREQHLTKEEREIRQQLAEKAKAGELKVVNGAAASQPPSKRKRRWDQTADQTPGA
          KTPDPKM.ARTYMDVMREQHLTKEER.IRQQLAEKAKAGELKVVNGAAASQPPSKRKRRWDQTADQTPGA
Retrocopy KTPDPKMNARTYMDVMREQHLTKEERDIRQQLAEKAKAGELKVVNGAAASQPPSKRKRRWDQTADQTPGA

Parental  TPKKLSSWDQAETPGHTPSLRWDETPGRAKGSETPGATPGSKIWDPTPSHTPAGAATPGRGDTPGHATPG
          TP.KL..WDQAETPGHT.SLRWDETPG.AKGSETP.ATP.SKIWDPTPSHTPA.AATPG.GDTPGHATPG
Retrocopy TPRKLPCWDQAETPGHTCSLRWDETPGSAKGSETPRATPRSKIWDPTPSHTPAEAATPGLGDTPGHATPG

Parental  HGGATSSARKNRWDETPKTERDTPGHGSGWAETPRTDRGGDSIGETPTPGASKRKSRWDETPASQMGGST
          HGGATSSARKNRWDETPKTERDTPGHGSGWAE.PRTDRGGDSIGETPTPGASKRKSRWDETPASQMGGST
Retrocopy HGGATSSARKNRWDETPKTERDTPGHGSGWAEMPRTDRGGDSIGETPTPGASKRKSRWDETPASQMGGST

Parental  PVLTPGKTPIGTPAMNMATPTPGHIMSMTPEQLQAWRWEREIDERNRPLSDEELDAMFPEGYKVLPPPAG
          PVLTPGKTP.GTPAMNMATPTPGHIMSMTPEQLQAWRWEREI.ERNR.LSD..LDAMFPEGYKVLPPPAG
Retrocopy PVLTPGKTPLGTPAMNMATPTPGHIMSMTPEQLQAWRWEREIAERNRSLSDDDLDAMFPEGYKVLPPPAG

Parental  YVPIRTPARKLTATPTPLGGMTGFHMQTEDRTMKSVNDQPSGNLPFLKPDDIQYFDKLLVDVDESTLSPE
          Y.PIRTPARKLTATPTPLGGMTGFHMQTEDRTM.SVNDQPSGNLPFLKPDDIQYFDKLLVDVDESTLSPE
Retrocopy YAPIRTPARKLTATPTPLGGMTGFHMQTEDRTMQSVNDQPSGNLPFLKPDDIQYFDKLLVDVDESTLSPE

Parental  EQKERKIMKLLLKIKNGTPPMRKAALRQITDKAREFGAGPLFNQILPLLMSPTLEDQERHLLVKVIDRIL
          EQKERKIMKLLLKIKNGTPPMRKAAL.QITDK.REF.AGPL.NQILPLLMSPTLEDQERHLLVKVIDRIL
Retrocopy EQKERKIMKLLLKIKNGTPPMRKAALHQITDKTREFVAGPLLNQILPLLMSPTLEDQERHLLVKVIDRIL

Parental  Y-KLDDLVRPYVHKILVVIEPLLIDEDYYARVEGREIISNLAKAAGLATMISTMRPDIDNMDEYVRNTTA
          Y..LDDL..PYVHKILVVIEPLLIDEDYYARVEGRE.ISNLAKAAGLATMISTMRPD.DNMDEYVRNTTA
Retrocopy Y<QLDDLL*PYVHKILVVIEPLLIDEDYYARVEGRELISNLAKAAGLATMISTMRPDRDNMDEYVRNTTA

Parental  RAFAVVASALGIPSLLPFLKAVCKSKKSWQARHTGIKIVQQIAILMGCAILPHLRSLVEIIEHGLVDEQQ
          RAFAVVASALGI.SLLPFLKAVCKSKKSWQARHTGIKIVQQIAIL.GC.ILPHLRSLVEIIEH.LVDEQQ
Retrocopy RAFAVVASALGISSLLPFLKAVCKSKKSWQARHTGIKIVQQIAILVGCTILPHLRSLVEIIEHSLVDEQQ

Parental  KVRTISALAIAALAEAATPYGIESFDSVLKPLWKGIRQHRGKGLAAFLKAIGYLIPLMDAEYANYYTREV
          KVR.ISALAIA.LAEAATPYGIESFDSVLKPLWKGIRQ.RG.GLAAFLKAIGYL.PLMDAEYANYYTREV
Retrocopy KVRIISALAIATLAEAATPYGIESFDSVLKPLWKGIRQYRGRGLAAFLKAIGYLTPLMDAEYANYYTREV

Parental  MLILIREFQSPDEEMKKI-VLKVVKQCCGTDGVEANYIKTEILPP
          MLILIREFQSPDEEMK...VLKVV.QCCGTDGVEANYIK.EIL.P
Retrocopy MLILIREFQSPDEEMKTV<VLKVVNQCCGTDGVEANYIKIEILLP

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Myotis lucifugus was not studied using RNA-Seq expression data.

ChIP-Seq

Myotis lucifugus was not studied using ChIP-Seq data.

EST

Myotis lucifugus was not studied using EST data.

TSS

Myotis lucifugus was not studied using FANTOM5 data.

Lab

retro_mluc_404 was not experimentally validated.

Homology

Retrocopy orthology:

Myotis lucifugus 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 1 parental gene, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Myotis lucifugus	ENSMLUG00000000840	5 retrocopies	retro_mluc_1952, retro_mluc_2547, retro_mluc_2590, retro_mluc_404 , retro_mluc_405,