RetrogeneDB ID: retro_mluc_1235

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429808:7558347..7559989(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ACCSL
• Ensembl ID: ENSMLUG00000005151
• Aliases: None
• Description: None

Sequence

>retro_mluc_1235
CCCCACCCCCGGGTGATGGAAGTGATCCTGCATCTGCAGCAGATCATAAATGAGTACATCCTGCAGCTGGAGAGCAGGCA
CCAGCAGGAGGACCTGGAGCAGGAGGAGCAACAGCACAGACAGAACATCAGCTACCAGGAAGCCATCCTCATCCATTTAA
TGTGTGAGGTGGTCAACCTCTTACACTCCGGAGTCTCAAGTAGCCTGGAGCTCCAACTGCCTTGCCTTTCCCTGGACTCA
AAGGGTGGTGCTGGAGGTGGTCAGCAGGCCCAGTCATCCAGGGAGCCTGACCAGCTAAGTCACCAACTGAGTGATTCAAA
AACTGCATTTATCAGCTGTTACCTATCCAATCGTGGGATTGACGTCTCTGCCTTATACCAGTCCAACTTCTAGGACTTCA
GAGCCTACCAAGGAGACAAATACCATGAGGACAAGAACATCTTGGGCTTCATTAACCTTGGCCTCAGTGAGAACAAGCTC
TGCATTGATCTGTTGACTGAAAGGTTAAGTCAGAGTGACATGAACTACATTGATGATGACCTTCTGCAATATCTGATTGG
AGAGGACATGCATTCCTGAGGGAAGAAGTAGCCCAGTTCCTGACCTACTACTGCAAGGCACCTGACCTGCTTGATCCATA
AAATGTGGTTTTCTCAATAGCTCCCTCTCTGTCTTCTTGACCCTGACCATGGTGCTGTGTGATCCAGGTGATGCCTTTCT
AATCCCCACCCCCTTCTATTCTGGCTTCACATTAACTTCCCGCCTGTATTCAAAAGTTGAGCTGATTCATGTCCACCTGT
AGAGTAAGATCACTGAGGTGGACACCCAGCCATTCCAGCTGATTGTGGACAAATTGGAGAAAGCCCTGCTGGAGGCTAAG
TTTAAGGGGAAAAAGGTCAGAGGTCTTGTTCTCTTCAACCCCAATAATTCTCTGGGAAACATCGACACTTTGGACTCACT
GAAGGAATACCTGGAATTTGCCAAGAGGCACAACCTACATGTGATTATTGATGAGACTTACATGCTGTCTGAGTTTCGTG
CATCCATCCCATTCCACAGTGTTCTGAACATGAAAAGTTTGCCTGACCACAACAGGACCCATGTGATCTGGGGCACCAGT
AAGAGTTTTGGGATCTCTGGCTTTCGTTTTGGCACTCTGTACACCCACAACAAGGAGGTGGTCTCTGCCGTTGGCGCTTT
TGGCTTCCTCCACAGCATCACTGGCATCACCTAGCACAAGCTGTGTCGGCTGCTCCAGGAAAGAGAATGGATTGACAACG
TGTACCTGCCCACTAATCGCTCCTGGATGCAGGTAGCTCACAGGTACATCACCAACAAGTTGAAGACAATGAAGGTCAGT
CTTCTCAGTCGTGGCTCTGGCCTCTATATTTGGGTCAACTTGAAAGAGTACCTGGACCCATGCACATTTGAGGAAGAGCA
GCTCCTTTATCGCCGCTTCCTGGACAACAAGCTCCTATTGGCCCCTGGCAAGGCCTACATGTGTAAGGAGCCTGGCTGGT
TCCGCCTAACCTTTACAGATAAGCCCTTCCACCTGAAAGTCGCCATGCAGTGGTTCTCTGAGGCGCTAACCGTCAAGAAG
CAGAATTGGATAGAGAAACAACTGGAGGATGCACTGGTGGAA

Alignment

ORF - retro_mluc_1235 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.45 %
• Parental protein coverage: 95.79 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  PHPPVMELILRLRQLIDEYSRQLKIKHLQEDLEQEKQRHSQDTREQEAILVQLLGEVVNLLQAGATSSLE
          PHP.VME.IL.L.Q.I.EY..QL...H.QEDLEQE.Q.H.Q....QEAIL..L..EVVNLL..G..SSLE
Retrocopy PHPRVMEVILHLQQIINEYILQLESRHQQEDLEQEEQQHRQNISYQEAILIHLMCEVVNLLHSGVSSSLE

Parental  LQLPRLSLDSRGG--GGQQAQLPRKPDQLSHQLSDSKAAVVSCDLSNRGIDISASYKSSFKDFIAYQGDK
          LQLP.LSLDS.GG..GGQQAQ..R.PDQLSHQLSDSK.A..SC.LSNRGID.SA.Y.S.F.DF.AYQGDK
Retrocopy LQLPCLSLDSKGGAGGGQQAQSSREPDQLSHQLSDSKTAFISCYLSNRGIDVSALYQSNF*DFRAYQGDK

Parental  YHEDKNTLGCINLGLSENKLCIDLLTERLSRSDMNYIDDDLLQY-PDWSGHAFLREEVARFLTYYCKAPE
          YHEDKN.LG.INLGLSENKLCIDLLTERLS.SDMNYIDDDLLQY..DW.GHAFLREEVA.FLTYYCKAP.
Retrocopy YHEDKNILGFINLGLSENKLCIDLLTERLSQSDMNYIDDDLLQY<SDWRGHAFLREEVAQFLTYYCKAPD

Parental  QLDPENVVV-LSGCCAIFSALTLVLCNPGDAFLIITPFYSGFTFTSSLYVNVELIRVHLDSEITEADTQP
          .LDP.NVV..L......F..LT.VLC.PGDAFLI.TPFYSGFT.TS.LY..VELI.VHL.S.ITE.DTQP
Retrocopy LLDP*NVVF<LNSSLSVFLTLTMVLCDPGDAFLIPTPFYSGFTLTSRLYSKVELIHVHL*SKITEVDTQP

Parental  FQLTVDKLEKALLEARLKGKKVKGLVLINPNNPLGDIYSRDSLMEYLEFAKRYNLHVIIDEIYMGTVFDE
          FQL.VDKLEKALLEA..KGKKV.GLVL.NPNN.LG.I...DSL.EYLEFAKR.NLHVIIDE.YM...F..
Retrocopy FQLIVDKLEKALLEAKFKGKKVRGLVLFNPNNSLGNIDTLDSLKEYLEFAKRHNLHVIIDETYMLSEFRA

Parental  SIPFHSVLSMESLPDPNRTHVIWGTSKGFGISGFRFGTLYTHNKEVVSAVGAFGFLHGISGITQHKLCRL
          SIPFHSVL.M.SLPD.NRTHVIWGTSK.FGISGFRFGTLYTHNKEVVSAVGAFGFLH.I.GIT.HKLCRL
Retrocopy SIPFHSVLNMKSLPDHNRTHVIWGTSKSFGISGFRFGTLYTHNKEVVSAVGAFGFLHSITGIT*HKLCRL

Parental  LQDREWIDNVYLPTNRSRMQEAHRYITNRLKTLKIPFLSRGSGLYIWVNLKEYLDPCTFEEEQLLYRRFL
          LQ.REWIDNVYLPTNRS.MQ.AHRYITN.LKT.K...LSRGSGLYIWVNLKEYLDPCTFEEEQLLYRRFL
Retrocopy LQEREWIDNVYLPTNRSWMQVAHRYITNKLKTMKVSLLSRGSGLYIWVNLKEYLDPCTFEEEQLLYRRFL

Parental  DNKLLLAPGKAYMCKEPGWFRLTFSDKPLRLKVAMNRFSQALLEQKQYWVEKQMKCVLGE
          DNKLLLAPGKAYMCKEPGWFRLTF.DKP..LKVAM..FS.AL...KQ.W.EKQ....L.E
Retrocopy DNKLLLAPGKAYMCKEPGWFRLTFTDKPFHLKVAMQWFSEALTVKKQNWIEKQLEDALVE

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_1235 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 13 parental genes, and 20 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000011384	1 retrocopy	retro_cjac_100,
Dipodomys ordii	ENSDORG00000005058	1 retrocopy	retro_dord_340,
Equus caballus	ENSECAG00000011908	1 retrocopy	retro_ecab_575,
Echinops telfairi	ENSETEG00000009026	2 retrocopies	retro_etel_1006, retro_etel_204,
Homo sapiens	ENSG00000205126	1 retrocopy	retro_hsap_3553,
Myotis lucifugus	ENSMLUG00000005151	1 retrocopy	retro_mluc_1235 ,
Nomascus leucogenys	ENSNLEG00000017966	1 retrocopy	retro_nleu_2326,
Ochotona princeps	ENSOPRG00000002097	1 retrocopy	retro_opri_526,
Ochotona princeps	ENSOPRG00000006805	7 retrocopies	retro_opri_1064, retro_opri_1151, retro_opri_251, retro_opri_252, retro_opri_398, retro_opri_399, retro_opri_808,
Pongo abelii	ENSPPYG00000003340	1 retrocopy	retro_pabe_2934,
Pan troglodytes	ENSPTRG00000028662	1 retrocopy	retro_ptro_2414,
Tupaia belangeri	ENSTBEG00000016623	1 retrocopy	retro_tbel_3677,
Tursiops truncatus	ENSTTRG00000002727	1 retrocopy	retro_ttru_1321,