RetrogeneDB ID: retro_mluc_1140

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429798:8410618..8411611(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMLUG00000014452
• Aliases: None
• Description: None

Sequence

>retro_mluc_1140
CTCTTCCACTGCCATTTTAAATCCGGCTCCGTACAACGCTCTGCCACTACTGCTGCGACCCAAACTGCATGCCAGCACCC
ACAGGCTGACAAGGCCGCTGCCATGGAGGACATGAATGAGAACAGCAACACGGAGGAGTTCGCAGAGGGATCCAAGATCA
ACGCGAGCAAGAATCAGCAGGATGATGGTAAAATGTTTACTGGAGGCTTGATCTGGGAAACAAGCAAGAAAGATCTGACT
GAATATTTGTCTCAATTTTGGGGAAGTTGTAGACTGCACAATTAAAATAGATCCAGTAACTAGACGATCAAGAGGATTTG
GATTTGTGCTTTTCAAAGATGCTGCTAGTGTTGATACGGTTTTGGAACTGAAGAAACACAAACTGGATGGCAAACGGATA
GACCCCCAAAAGGGCAAACGCTTTAAAAGGGAAGGAACCCCCCAAAAAGGTTTTTGTGGGTGGATTGAGCCCAGATACTT
CTGAAGAACAAATTAAAGAATATTTTGGAGCCTTTTGGAGAGATTGAAAATATTGAACTTCCCATGGATACAAAAACAAA
TGAGAGAAGAGGTTTTTGTTTTATCACATATACAGATGAGGAGCCAGTAAAGAAATTGTTAGAAAGCAGATATCATCAAA
TTGGTTCTGGGAAGTGTGAAATCAAAGTTGCCCAACCCAAAGAGGTATATAGACAGCAACAGCAATAACAAAAGGGAGGA
TGAGGTGCTGAAGCTGGTGGAAGAGGTGGTACTAGGGTTCGAGGCCGAGGTCAGGGCCAAAATTGGAACCAAGGATTTAA
TAACTATTATGATCAAGGATATTACAATAGTGCCTATGGTGGTGATCAAAACTATAGTGGCTATGATTATACGGGGTATA
ACTATGGGACCTATGGATATGGACAGGGATATGCAGACTACAGTGGCCAACAGAGCACTTATGGCAAGGCATTTCAAGGG
TGAGGCAATCACCAAAATAATTATCAGCCACAC

Alignment

ORF - retro_mluc_1140 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.76 %
• Parental protein coverage: 79.95 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  LFRRHFKSGSIQRSAAAAATRTARQHPPADNAAAMEDVNEYSNTEEFAEGSKINASKNQQDDGKMFIGGL
          LF..HFKSGS.QRSA..AAT.TA.QHP.AD.AAAMED.NE.SNTEEFAEGSKINASKNQQDDGKMF.GGL
Retrocopy LFHCHFKSGSVQRSATTAATQTACQHPQADKAAAMEDMNENSNTEEFAEGSKINASKNQQDDGKMFTGGL

Parental  SWDTSKKDLTEYLSRF-GEVVDCTIKTDPVTGRSRGFGFVLFKDAASVDKVLELKEHKLDGKLIDP-KRA
          .W.TSKKDLTEYLS.F.GEVVDCTIK.DPVT.RSRGFGFVLFKDAASVD.VLELK.HKLDGK.IDP.KRA
Retrocopy IWETSKKDLTEYLSQF>GEVVDCTIKIDPVTRRSRGFGFVLFKDAASVDTVLELKKHKLDGKRIDP>KRA

Parental  KALKGKEPPKKVFVGGLSPDTSEEQIKEYFGA-FGEIENIELPMDTKTNERRGFCFITYTDEEPVKKLLE
          .ALKGKEPPKKVFVGGLSPDTSEEQIKEYFGA.FGEIENIELPMDTKTNERRGFCFITYTDEEPVKKLLE
Retrocopy NALKGKEPPKKVFVGGLSPDTSEEQIKEYFGA>FGEIENIELPMDTKTNERRGFCFITYTDEEPVKKLLE

Parental  SRYHQIGSGKCEIKVAQPKEVYRQQQQQQKGGRGAAAGGRGGTRGRGRGQGQNWNQGFNNYYDQGYGNYN
          SRYHQIGSGKCEIKVAQPKEVYRQQQQ.QKGG.GA.AGGRGGTR.RGRGQGQNWNQGFNNYYDQGY..YN
Retrocopy SRYHQIGSGKCEIKVAQPKEVYRQQQQ*QKGG*GAEAGGRGGTRVRGRGQGQNWNQGFNNYYDQGY--YN

Parental  SAYGGDQNYSGYGGYDYTGYNYGNYGYGQGYADYSGQQSTYGKASRGGGNHQNNYQPY
          SAYGGDQNYSGY...DYTGYNYG.YGYGQGYADYSGQQSTYGKA..G.GNHQNNYQP.
Retrocopy SAYGGDQNYSGY---DYTGYNYGTYGYGQGYADYSGQQSTYGKAFQG*GNHQNNYQPH

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_1140 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 21 parental genes, and 47 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000014804	2 retrocopies	retro_btau_1827, retro_btau_461,
Canis familiaris	ENSCAFG00000008940	1 retrocopy	retro_cfam_1086,
Choloepus hoffmanni	ENSCHOG00000000160	8 retrocopies	retro_chof_115, retro_chof_1470, retro_chof_2108, retro_chof_2370, retro_chof_533, retro_chof_59, retro_chof_741, retro_chof_890,
Choloepus hoffmanni	ENSCHOG00000003275	2 retrocopies	retro_chof_1578, retro_chof_18,
Cavia porcellus	ENSCPOG00000015619	5 retrocopies	retro_cpor_1110, retro_cpor_1318, retro_cpor_264, retro_cpor_274, retro_cpor_567,
Dipodomys ordii	ENSDORG00000000968	1 retrocopy	retro_dord_145,
Equus caballus	ENSECAG00000022692	1 retrocopy	retro_ecab_1082,
Loxodonta africana	ENSLAFG00000008612	1 retrocopy	retro_lafr_650,
Microcebus murinus	ENSMICG00000001445	4 retrocopies	retro_mmur_1016, retro_mmur_1570, retro_mmur_1572, retro_mmur_557,
Myotis lucifugus	ENSMLUG00000000648	3 retrocopies	retro_mluc_2503, retro_mluc_342, retro_mluc_82,
Myotis lucifugus	ENSMLUG00000003380	2 retrocopies	retro_mluc_2024, retro_mluc_2138,
Myotis lucifugus	ENSMLUG00000007578	1 retrocopy	retro_mluc_34,
Myotis lucifugus	ENSMLUG00000014452	2 retrocopies	retro_mluc_1140 , retro_mluc_1761,
Mustela putorius furo	ENSMPUG00000014753	2 retrocopies	retro_mputfur_1359, retro_mputfur_600,
Nomascus leucogenys	ENSNLEG00000008636	1 retrocopy	retro_nleu_673,
Oryctolagus cuniculus	ENSOCUG00000013805	1 retrocopy	retro_ocun_505,
Otolemur garnettii	ENSOGAG00000002501	4 retrocopies	retro_ogar_2717, retro_ogar_2791, retro_ogar_437, retro_ogar_693,
Ochotona princeps	ENSOPRG00000007178	3 retrocopies	retro_opri_1075, retro_opri_623, retro_opri_703,
Procavia capensis	ENSPCAG00000011543	1 retrocopy	retro_pcap_366,
Rattus norvegicus	ENSRNOG00000002270	1 retrocopy	retro_rnor_1365,
Sorex araneus	ENSSARG00000009961	1 retrocopy	retro_sara_421,