AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG010380

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010380 MtrunA17_Chr2g0323881 95.339 236 11 0 1 236 1 236 1.95e-170 468
MsaG010380 MtrunA17_Chr4g0022491 77.542 236 53 0 1 236 4 239 1.18e-138 388
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010380 AT4G28190.1 68.936 235 73 0 2 236 3 237 1.53e-122 348
MsaG010380 AT4G28190.2 60.902 266 73 1 2 236 3 268 9.71e-116 332
MsaG010380 AT2G20825.1 66.094 233 72 2 5 236 1 227 9.46e-113 323

Find 54 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTTCAGTGATGAAGATTTA+AGG 0.211470 2:+72688368 MsaT010380.1:CDS
ATGCTTTAGCTGATCCTAAT+TGG 0.234644 2:+72689639 MsaT010380.1:CDS
GGAAATGGAAGAACAATATC+TGG 0.261820 2:+72689414 MsaT010380.1:CDS
GGTGGCAAGCCTGTCCATTA+TGG 0.266436 2:-72689532 None:intergenic
AGATCGGAACATTTCCAATT+AGG 0.291460 2:-72689653 None:intergenic
GCTGCGTTTGAGAAACATTC+TGG 0.316093 2:+72689377 MsaT010380.1:CDS
ACAAGAAGTGCAACCTTTGC+AGG 0.345352 2:-72690691 None:intergenic
TGCACTTCTTGTGTGTGCTT+TGG 0.357522 2:+72690702 MsaT010380.1:CDS
TTGCACTTGCCAGACTTGTA+TGG 0.394373 2:+72690749 MsaT010380.1:CDS
GTTCAGTGATGAAGATTTAA+GGG 0.396746 2:+72688369 MsaT010380.1:CDS
GAAGAGAAACAGCTAGGAAA+TGG 0.415093 2:+72689399 MsaT010380.1:CDS
GACATTCCTCTTTAGTTCTC+AGG 0.425086 2:-72689604 None:intergenic
GTGGCAAGCCTGTCCATTAT+GGG 0.430290 2:-72689531 None:intergenic
GTGATGCTGTTGGAAGGCTT+AGG 0.446422 2:+72688461 MsaT010380.1:CDS
ATGGGATTTGTGGGATCCAT+TGG 0.447632 2:-72689513 None:intergenic
TTTGATAGAAAATGTCAAAC+GGG 0.447762 2:+72688320 None:intergenic
CTGTCCATTATGGGATTTGT+GGG 0.453959 2:-72689522 None:intergenic
GGATCCCACAAATCCCATAA+TGG 0.455567 2:+72689518 MsaT010380.1:CDS
GATTGAACATACTTGTCATA+TGG 0.463333 2:-72689677 None:intergenic
CATGATATGAACTCAAGCTT+TGG 0.464804 2:-72690787 None:intergenic
TGATGCTGTTGGAAGGCTTA+GGG 0.470994 2:+72688462 MsaT010380.1:CDS
CCTGTCCATTATGGGATTTG+TGG 0.475128 2:-72689523 None:intergenic
TTGTAAAGTCCATACAAGTC+TGG 0.482167 2:-72690758 None:intergenic
ATTACTTGTGAATGCATCCC+TGG 0.500390 2:+72688508 MsaT010380.1:CDS
AGACTTGTATGGACTTTACA+AGG 0.505964 2:+72690760 MsaT010380.1:CDS
GAATGTTTCTCAAACGCAGC+AGG 0.520755 2:-72689374 None:intergenic
GAAGATTTAAGGGATATTGA+TGG 0.527608 2:+72688379 MsaT010380.1:CDS
AACGGGTTAGAGAGAGAAAG+TGG 0.529218 2:+72688337 MsaT010380.1:CDS
TGCATCCCTGGCTGTGAAGA+AGG 0.533173 2:+72688520 MsaT010380.1:CDS
AATATCTGGGTAACAGTTGA+CGG 0.535992 2:+72689428 MsaT010380.1:CDS
CAAGGACCTTCTTCACAGCC+AGG 0.541987 2:-72688526 None:intergenic
CATAGATATGGTGATGCTGT+TGG 0.550066 2:+72688451 MsaT010380.1:CDS
CCACAAATCCCATAATGGAC+AGG 0.550072 2:+72689523 MsaT010380.1:CDS
TGTGATGATGAAGAAGAAAG+AGG 0.552017 2:+72690630 MsaT010380.1:CDS
CAAGCATTGAAAACAGCCAA+TGG 0.559314 2:+72689497 MsaT010380.1:CDS
ACTCATTCTGCAGCCTGCAA+AGG 0.562795 2:+72690678 MsaT010380.1:CDS
CAGCTAAAGCATCATGGTGA+CGG 0.575142 2:-72689628 None:intergenic
GAAATGGAAGAACAATATCT+GGG 0.577525 2:+72689415 MsaT010380.1:CDS
TACAACAGACAAACTCATCA+TGG 0.578292 2:-72689553 None:intergenic
GTTCCGCCTGAGAACTAAAG+AGG 0.578750 2:+72689598 MsaT010380.1:CDS
ATACTTGTCATATGGAAGAT+CGG 0.592135 2:-72689669 None:intergenic
TAGGATCAGCTAAAGCATCA+TGG 0.594494 2:-72689634 None:intergenic
TAAATCTTCATCACTGAACA+TGG 0.598934 2:-72688365 None:intergenic
GGTTGTACTAGTCATAGATA+TGG 0.606067 2:+72688439 MsaT010380.1:CDS
ATTCTGGAAGAGAAACAGCT+AGG 0.616300 2:+72689393 MsaT010380.1:CDS
GGTAACAGTTGACGGCGAGA+AGG 0.623616 2:+72689436 MsaT010380.1:CDS
AAGGACCTTCTTCACAGCCA+GGG 0.637911 2:-72688525 None:intergenic
CTAGATGTAACAAAGAGCGC+AGG 0.644243 2:+72689576 MsaT010380.1:CDS
ATTCCTCTTTAGTTCTCAGG+CGG 0.652096 2:-72689601 None:intergenic
GATATGGTGATGCTGTTGGA+AGG 0.656454 2:+72688455 MsaT010380.1:CDS
GGCAGTCGCAGAGTTTACAG+AGG 0.678401 2:+72690651 MsaT010380.1:CDS
ACGGGTTAGAGAGAGAAAGT+GGG 0.717955 2:+72688338 MsaT010380.1:CDS
AACAGACAAACTCATCATGG+TGG 0.730805 2:-72689550 None:intergenic
GAATGTATTGAAGTGATGTG+TGG 0.733349 2:+72688418 MsaT010380.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 72688331 72690797 72688331 ID=MsaG010380
Chr2 mRNA 72688331 72690797 72688331 ID=MsaT010380.1;Parent=MsaG010380
Chr2 exon 72688331 72688541 72688331 ID=MsaT010380.1.exon1;Parent=MsaT010380.1
Chr2 CDS 72688331 72688541 72688331 ID=cds.MsaT010380.1;Parent=MsaT010380.1
Chr2 exon 72689363 72689687 72689363 ID=MsaT010380.1.exon2;Parent=MsaT010380.1
Chr2 CDS 72689363 72689687 72689363 ID=cds.MsaT010380.1;Parent=MsaT010380.1
Chr2 exon 72690623 72690797 72690623 ID=MsaT010380.1.exon3;Parent=MsaT010380.1
Chr2 CDS 72690623 72690797 72690623 ID=cds.MsaT010380.1;Parent=MsaT010380.1
Gene Sequence

>MsaT010380.1

ATGTCAAACGGGTTAGAGAGAGAAAGTGGGTTCACCATGTTCAGTGATGAAGATTTAAGGGATATTGATGGTGTGAAGAAAATTAGAGAATGTATTGAAGTGATGTGTGGTTGTACTAGTCATAGATATGGTGATGCTGTTGGAAGGCTTAGGGTTTTTGTTAGTGGCTATCTTGAAATTACTTGTGAATGCATCCCTGGCTGTGAAGAAGACAAGTTGACTCCTGCTGCGTTTGAGAAACATTCTGGAAGAGAAACAGCTAGGAAATGGAAGAACAATATCTGGGTAACAGTTGACGGCGAGAAGGTCCCATTGTATAAAACAGTTCTACTCAAATACTACAATCAAGCATTGAAAACAGCCAATGGATCCCACAAATCCCATAATGGACAGGCTTGCCACCATGATGAGTTTGTCTGTTGTACTAGATGTAACAAAGAGCGCAGGTTCCGCCTGAGAACTAAAGAGGAATGTCGCCGTCACCATGATGCTTTAGCTGATCCTAATTGGAAATGTTCCGATCTTCCATATGACAAAATTACTTGTGATGATGAAGAAGAAAGAGGCAGTCGCAGAGTTTACAGAGGATGCACTCATTCTGCAGCCTGCAAAGGTTGCACTTCTTGTGTGTGCTTTGGTTGTGATATATGCCGTTTTTCAGATTGCACTTGCCAGACTTGTATGGACTTTACAAGGAATGCCAAAGCTTGA
Protein sequence

>MsaT010380.1

MSNGLERESGFTMFSDEDLRDIDGVKKIRECIEVMCGCTSHRYGDAVGRLRVFVSGYLEITCECIPGCEEDKLTPAAFEKHSGRETARKWKNNIWVTVDGEKVPLYKTVLLKYYNQALKTANGSHKSHNGQACHHDEFVCCTRCNKERRFRLRTKEECRRHHDALADPNWKCSDLPYDKITCDDEEERGSRRVYRGCTHSAACKGCTSCVCFGCDICRFSDCTCQTCMDFTRNAKA*