AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG017526


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG017526 MtrunA17_Chr3g0141401 91.111 315 6 1 1 293 1 315 0.0 574
MsaG017526 MtrunA17_Chr5g0403631 53.401 294 113 8 18 291 34 323 1.27e-74 231
MsaG017526 MtrunA17_Chr1g0154651 45.652 276 85 6 16 291 37 247 4.75e-65 204
MsaG017526 MtrunA17_Chr2g0315211 39.610 308 134 15 18 290 31 321 5.48e-33 123
MsaG017526 MtrunA17_Chr2g0315201 37.013 308 135 9 18 290 31 314 3.17e-30 115
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG017526 AT1G75080.2 62.373 295 88 10 15 291 45 334 2.43e-104 308
MsaG017526 AT1G75080.1 62.373 295 88 10 15 291 45 334 2.43e-104 308
MsaG017526 AT1G19350.3 61.616 297 91 9 15 293 66 357 1.79e-103 306
MsaG017526 AT1G19350.5 61.616 297 91 9 15 293 44 335 2.01e-103 305
MsaG017526 AT1G19350.1 61.616 297 91 9 15 293 44 335 2.01e-103 305
MsaG017526 AT1G19350.6 61.616 297 91 9 15 293 44 335 2.01e-103 305
MsaG017526 AT1G19350.4 61.616 297 91 9 15 293 44 335 2.01e-103 305
MsaG017526 AT3G50750.1 52.536 276 88 7 15 288 36 270 2.28e-67 211
MsaG017526 AT4G36780.1 57.627 177 68 3 15 187 38 211 1.48e-42 147
MsaG017526 AT1G78700.1 36.111 324 121 13 18 288 31 321 9.51e-36 131
MsaG017526 AT4G18890.1 38.462 286 129 13 18 290 31 282 1.03e-27 108

Find 101 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCAGGTCAAGCCTTGGGTT+GGG 0.244939 3:+110391665 MsaT017526.1:CDS
TTATGCTGCTCATTAATTAC+AGG 0.267539 3:-110391586 None:intergenic
CAAAGATTTACGCGGGATTA+AGG 0.278250 3:+110390114 MsaT017526.1:CDS
TGAAGTGGGCTTGGATGATT+TGG 0.316017 3:+110391699 MsaT017526.1:CDS
AGGATTTCAGAGCCAGAGTT+TGG 0.317045 3:+110391640 MsaT017526.1:CDS
CCATGTTGGAATCATGGGTT+TGG 0.326849 3:-110391347 None:intergenic
CATGTTGGAATCATGGGTTT+GGG 0.346172 3:-110391346 None:intergenic
TCATTGTTATCACAGTGTTT+TGG 0.378019 3:-110390158 None:intergenic
GAATCAATTGCCAAAGCATC+AGG 0.379878 3:+110391370 MsaT017526.1:CDS
GTGCAGGTCAAGCCTTGGGT+TGG 0.384192 3:+110391664 MsaT017526.1:CDS
GGATTTCAGAGCCAGAGTTT+GGG 0.385062 3:+110391641 MsaT017526.1:CDS
TTGGAGCTTACTCTTGGAAA+TGG 0.386518 3:+110391718 MsaT017526.1:CDS
TGGGGTGCAGGTCAAGCCTT+GGG 0.386786 3:+110391660 MsaT017526.1:CDS
TGATTCCCATGTTGGAATCA+TGG 0.387349 3:-110391353 None:intergenic
TTGGGGTGCAGGTCAAGCCT+TGG 0.395856 3:+110391659 MsaT017526.1:CDS
AGAGCCAGAGTTTGGGGTGC+AGG 0.400385 3:+110391648 MsaT017526.1:CDS
GAATAGTAGGTGGTGTATAA+AGG 0.410535 3:-110391453 None:intergenic
GATGATTTGGAGCTTACTCT+TGG 0.411343 3:+110391712 MsaT017526.1:CDS
GGCGCAGAAGCTGCGAAGAA+AGG 0.412024 3:-110391409 None:intergenic
GTATCAGACTCATCACATTC+AGG 0.421362 3:-110391475 None:intergenic
CTTGAAGTTGGTGATGAGAT+AGG 0.423563 3:-110391319 None:intergenic
GGGAACATGCTGCGAGCATA+TGG 0.428278 3:-110391244 None:intergenic
GAAGGATGTCCCTGATGCTT+TGG 0.432371 3:-110391380 None:intergenic
AAGGATTCATGAAGTGGGCT+TGG 0.442178 3:+110391690 MsaT017526.1:CDS
GCAGGTCAAGCCTTGGGTTG+GGG 0.445549 3:+110391666 MsaT017526.1:CDS
GAAACACCAGGCGACGGTGC+AGG 0.453828 3:+110391064 MsaT017526.1:CDS
CTCTTTGTGCTGAAGCTGGT+TGG 0.455901 3:+110390192 MsaT017526.1:CDS
TAGGTGGTGTATAAAGGTTC+CGG 0.456174 3:-110391447 None:intergenic
TCATCACATTCAGGAATAGT+AGG 0.457941 3:-110391466 None:intergenic
ATTTCCGAGCCCGTCTCGTA+TGG 0.458323 3:+110391192 MsaT017526.1:CDS
AAGAGGAAGATGGGCTAACT+TGG 0.459342 3:-110391168 None:intergenic
TTACGCGGGATTAAGGTCTC+AGG 0.461228 3:+110390121 MsaT017526.1:CDS
AAATTTCCTGCACCGTCGCC+TGG 0.461316 3:-110391070 None:intergenic
AAAGCTCTTTGTGCTGAAGC+TGG 0.466712 3:+110390188 MsaT017526.1:CDS
CAAAGGTGGGAGAGACATGT+TGG 0.476794 3:-110391266 None:intergenic
TGAACACTGAACAGGGATCA+AGG 0.477060 3:+110391038 MsaT017526.1:intron
GATTCCCATGTTGGAATCAT+GGG 0.479782 3:-110391352 None:intergenic
GATACTTCTACTGTTGAGTC+TGG 0.480255 3:+110391493 MsaT017526.1:CDS
TAGCAGAAGCTGCAAAGGCT+TGG 0.482094 3:-110391531 None:intergenic
TCAAGCCTTGGGTTGGGGAA+AGG 0.483086 3:+110391671 MsaT017526.1:CDS
GCATCCATACGAGACGGGCT+CGG 0.486953 3:-110391196 None:intergenic
TGGTAGGAAGGGATTGGACT+TGG 0.487033 3:-110391148 None:intergenic
AATGATGATGAAAGAGGACT+TGG 0.489656 3:-110391124 None:intergenic
TTGGCAATTGATTCCCATGT+TGG 0.490224 3:-110391361 None:intergenic
ATCTCCTGCATTCTGTTATG+AGG 0.491673 3:-110391616 None:intergenic
TTGACCTGCACCCCAAACTC+TGG 0.493982 3:-110391652 None:intergenic
GCGCAGAAGCTGCGAAGAAA+GGG 0.494226 3:-110391408 None:intergenic
AAAGGTGGGAGAGACATGTT+GGG 0.494510 3:-110391265 None:intergenic
GGTTTGGGATTTCTTGAAGT+TGG 0.496117 3:-110391331 None:intergenic
AGGCTTGGAAATTCAACCAT+TGG 0.499150 3:-110391516 None:intergenic
GGTTTCATAAAGTTCAATGT+AGG 0.500604 3:-110391565 None:intergenic
CTCGGAAATGAAGAGGAAGA+TGG 0.501823 3:-110391178 None:intergenic
GATGGGCTAACTTGGTAGGA+AGG 0.510153 3:-110391160 None:intergenic
TAAAAGTACCCTGCGATAAG+TGG 0.514725 3:-110390234 None:intergenic
GATGAGATAGGTGGCGTCAC+AGG 0.527145 3:-110391307 None:intergenic
CTAACTTGGTAGGAAGGGAT+TGG 0.532618 3:-110391154 None:intergenic
TGATTTAGCAGAAGCTGCAA+AGG 0.535526 3:-110391536 None:intergenic
TGTTTGCATCCATACGAGAC+GGG 0.538446 3:-110391201 None:intergenic
GGTTGGATTGTTGAAGAAGA+TGG 0.538632 3:+110390209 MsaT017526.1:CDS
CTGTTTGATATTCTCAAAGG+TGG 0.543504 3:-110391280 None:intergenic
TTCCGGTGGGATGGACTAGT+AGG 0.544807 3:-110391430 None:intergenic
GTATAAAGGTTCCGGTGGGA+TGG 0.546631 3:-110391439 None:intergenic
TGAATCCTTTCCCCAACCCA+AGG 0.565111 3:-110391676 None:intergenic
AAGATGGCACCACTTATCGC+AGG 0.566281 3:+110390225 MsaT017526.1:CDS
GGATCAAGGGCAGAAACACC+AGG 0.568579 3:+110391052 MsaT017526.1:CDS
GGAAGATGGGCTAACTTGGT+AGG 0.570068 3:-110391164 None:intergenic
ATGGGCTAACTTGGTAGGAA+GGG 0.578259 3:-110391159 None:intergenic
CCAAACCCATGATTCCAACA+TGG 0.578571 3:+110391347 MsaT017526.1:CDS
TACGCGGGATTAAGGTCTCA+GGG 0.579295 3:+110390122 MsaT017526.1:CDS
CTACTGTTGAGTCTGGCCAA+TGG 0.579821 3:+110391500 MsaT017526.1:CDS
TTGTTTGCATCCATACGAGA+CGG 0.580413 3:-110391202 None:intergenic
CTTGGAAATGATGATGAAAG+AGG 0.585676 3:-110391130 None:intergenic
TATACTAGTCTTCATTAACT+AGG 0.587526 3:-110391748 None:intergenic
TCGGAAATGAAGAGGAAGAT+GGG 0.591259 3:-110391177 None:intergenic
GAACACTGAACAGGGATCAA+GGG 0.592233 3:+110391039 MsaT017526.1:intron
GCTGCCTCATAACAGAATGC+AGG 0.597111 3:+110391612 MsaT017526.1:CDS
GATTTCAGAGCCAGAGTTTG+GGG 0.597331 3:+110391642 MsaT017526.1:CDS
GTGGTGTATAAAGGTTCCGG+TGG 0.599334 3:-110391444 None:intergenic
TGGGGAAAGGATTCATGAAG+TGG 0.599526 3:+110391684 MsaT017526.1:CDS
GCGCTGTTTGATATTCTCAA+AGG 0.602416 3:-110391283 None:intergenic
CAGTGTGGAATGGCTTCTGA+CGG 0.605971 3:+110389997 None:intergenic
CGCCTACTAGTCCATCCCAC+CGG 0.608831 3:+110391428 MsaT017526.1:CDS
TGTTTGATATTCTCAAAGGT+GGG 0.611100 3:-110391279 None:intergenic
ATAACAGAATGCAGGAGATG+AGG 0.612424 3:+110391620 MsaT017526.1:CDS
AGGGCAGAAACACCAGGCGA+CGG 0.612624 3:+110391058 MsaT017526.1:CDS
CAAACCCATGATTCCAACAT+GGG 0.619565 3:+110391348 MsaT017526.1:CDS
AGACGGGCTCGGAAATGAAG+AGG 0.620195 3:-110391185 None:intergenic
TGCGAAGAAAGGGTGACTGA+AGG 0.623859 3:-110391398 None:intergenic
GCTTACTCTTGGAAATGGAA+AGG 0.624748 3:+110391723 MsaT017526.1:CDS
GGGGAAAGGATTCATGAAGT+GGG 0.628370 3:+110391685 MsaT017526.1:CDS
ATAGCGGCAAAGATTTACGC+GGG 0.642415 3:+110390107 MsaT017526.1:intron
AATCAATTGCCAAAGCATCA+GGG 0.645925 3:+110391371 MsaT017526.1:CDS
TCACATTCAGGAATAGTAGG+TGG 0.669687 3:-110391463 None:intergenic
AAAACACTGTGATAACAATG+AGG 0.672851 3:+110390160 MsaT017526.1:CDS
AGATGGCACCACTTATCGCA+GGG 0.680637 3:+110390226 MsaT017526.1:CDS
TGGTGTATAAAGGTTCCGGT+GGG 0.684999 3:-110391443 None:intergenic
TTCTGACGGAGCAACTTCAG+CGG 0.689590 3:+110390011 MsaT017526.1:CDS
TATAGCGGCAAAGATTTACG+CGG 0.709001 3:+110390106 MsaT017526.1:intron
ACGCGGGATTAAGGTCTCAG+GGG 0.722971 3:+110390123 MsaT017526.1:CDS
AAGGTGGGAGAGACATGTTG+GGG 0.734444 3:-110391264 None:intergenic
GAAGTTGGTGATGAGATAGG+TGG 0.736539 3:-110391316 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 110390006 110391756 110390006 ID=MsaG017526
Chr3 mRNA 110390006 110391756 110390006 ID=MsaT017526.1;Parent=MsaG017526
Chr3 exon 110390006 110390045 110390006 ID=MsaT017526.1.exon1;Parent=MsaT017526.1
Chr3 CDS 110390006 110390045 110390006 ID=cds.MsaT017526.1;Parent=MsaT017526.1
Chr3 exon 110390111 110390247 110390111 ID=MsaT017526.1.exon2;Parent=MsaT017526.1
Chr3 CDS 110390111 110390247 110390111 ID=cds.MsaT017526.1;Parent=MsaT017526.1
Chr3 exon 110391052 110391756 110391052 ID=MsaT017526.1.exon3;Parent=MsaT017526.1
Chr3 CDS 110391052 110391756 110391052 ID=cds.MsaT017526.1;Parent=MsaT017526.1
Gene Sequence

>MsaT017526.1

ATGGCTTCTGACGGAGCAACTTCAGCGGCGAATTCAAGTCCGGCAAAGATTTACGCGGGATTAAGGTCTCAGGGGAATTATAATTTACCAAAACACTGTGATAACAATGAGGTCTTGAAAGCTCTTTGTGCTGAAGCTGGTTGGATTGTTGAAGAAGATGGCACCACTTATCGCAGGGGATCAAGGGCAGAAACACCAGGCGACGGTGCAGGAAATTTTAACAGAAACAACCCATTTTCATCTCAAAATCCAAGTCCTCTTTCATCATCATTTCCAAGTCCAATCCCTTCCTACCAAGTTAGCCCATCTTCCTCTTCATTTCCGAGCCCGTCTCGTATGGATGCAAACAACAATGCATCAAATTACATTCCATATGCTCGCAGCATGTTCCCCAACATGTCTCTCCCACCTTTGAGAATATCAAACAGCGCGCCTGTGACGCCACCTATCTCATCACCAACTTCAAGAAATCCCAAACCCATGATTCCAACATGGGAATCAATTGCCAAAGCATCAGGGACATCCTTCAGTCACCCTTTCTTCGCAGCTTCTGCGCCTACTAGTCCATCCCACCGGAACCTTTATACACCACCTACTATTCCTGAATGTGATGAGTCTGATACTTCTACTGTTGAGTCTGGCCAATGGTTGAATTTCCAAGCCTTTGCAGCTTCTGCTAAATCAGTCTCTCCTACATTGAACTTTATGAAACCTGTAATTAATGAGCAGCATAACATGCTGCCTCATAACAGAATGCAGGAGATGAGGATTTCAGAGCCAGAGTTTGGGGTGCAGGTCAAGCCTTGGGTTGGGGAAAGGATTCATGAAGTGGGCTTGGATGATTTGGAGCTTACTCTTGGAAATGGAAAGGCACCTAGTTAA

Protein sequence

>MsaT017526.1

MASDGATSAANSSPAKIYAGLRSQGNYNLPKHCDNNEVLKALCAEAGWIVEEDGTTYRRGSRAETPGDGAGNFNRNNPFSSQNPSPLSSSFPSPIPSYQVSPSSSSFPSPSRMDANNNASNYIPYARSMFPNMSLPPLRISNSAPVTPPISSPTSRNPKPMIPTWESIAKASGTSFSHPFFAASAPTSPSHRNLYTPPTIPECDESDTSTVESGQWLNFQAFAASAKSVSPTLNFMKPVINEQHNMLPHNRMQEMRISEPEFGVQVKPWVGERIHEVGLDDLELTLGNGKAPS*