AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG017505


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG017505 MtrunA17_Chr3g0141091 94.659 337 17 1 1 336 1 337 0.0 634
MsaG017505 MtrunA17_Chr5g0411541 49.275 345 146 11 1 336 1 325 4.35e-88 267
MsaG017505 MtrunA17_Chr7g0252041 46.316 190 76 4 170 333 284 473 3.31e-44 157
MsaG017505 MtrunA17_Chr3g0131691 45.408 196 76 5 165 333 291 482 7.38e-42 151
MsaG017505 MtrunA17_Chr1g0211081 53.425 73 34 0 160 232 305 377 3.46e-18 85.5
MsaG017505 MtrunA17_Chr1g0185621 32.692 156 76 5 163 289 459 614 2.06e-14 74.3
MsaG017505 MtrunA17_Chr2g0298751 52.941 68 31 1 168 234 48 115 6.14e-14 70.5
MsaG017505 MtrunA17_Chr5g0400671 28.571 175 108 4 168 326 150 323 1.84e-13 70.1
MsaG017505 MtrunA17_Chr2g0280161 27.273 187 113 6 161 329 167 348 9.25e-13 68.6
MsaG017505 MtrunA17_Chr4g0049331 26.590 173 107 5 170 325 133 302 9.86e-13 67.8
MsaG017505 MtrunA17_Chr8g0346161 31.579 171 85 8 158 303 274 437 1.23e-12 68.6
MsaG017505 MtrunA17_Chr8g0346151 34.706 170 82 9 158 302 262 427 1.25e-12 68.6
MsaG017505 MtrunA17_Chr4g0028071 45.312 64 35 0 165 228 142 205 2.26e-12 67.0
MsaG017505 MtrunA17_Chr2g0320291 30.128 156 90 5 171 308 132 286 2.27e-12 67.0
MsaG017505 MtrunA17_Chr7g0275821 28.834 163 101 5 169 318 249 409 1.37e-11 65.1
MsaG017505 MtrunA17_Chr5g0411341 28.814 177 95 6 159 306 478 652 1.69e-11 65.5
MsaG017505 MtrunA17_Chr8g0365711 30.872 149 80 4 171 298 243 389 2.70e-11 64.3
MsaG017505 MtrunA17_Chr7g0260841 42.169 83 43 2 156 233 334 416 3.70e-11 63.9
MsaG017505 MtrunA17_Chr8g0366751 38.372 86 50 2 142 225 431 515 3.76e-11 64.3
MsaG017505 MtrunA17_Chr2g0333611 26.531 196 125 6 144 325 20 210 5.87e-11 61.6
MsaG017505 MtrunA17_Chr6g0468491 29.004 231 113 10 1 229 13 194 9.41e-11 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG017505 AT5G65640.1 66.184 207 59 4 139 336 147 351 2.87e-79 246
MsaG017505 AT5G10570.1 64.286 182 57 3 159 336 138 315 9.09e-71 223
MsaG017505 AT1G12860.1 46.739 184 78 3 170 333 265 448 2.12e-43 155
MsaG017505 AT3G26744.1 45.026 191 75 5 170 333 305 492 2.13e-40 148
MsaG017505 AT3G26744.4 45.026 191 75 5 170 333 305 492 2.13e-40 148
MsaG017505 AT3G26744.2 45.026 191 75 5 170 333 305 492 2.13e-40 148
MsaG017505 AT1G12860.2 50.327 153 56 3 170 302 265 417 2.36e-38 141
MsaG017505 AT3G26744.6 48.125 160 53 5 170 302 305 461 3.79e-35 134
MsaG017505 AT5G65640.2 62.602 123 36 3 139 253 147 267 2.77e-31 119
MsaG017505 AT2G16910.1 35.484 155 64 4 171 289 313 467 5.73e-19 88.2
MsaG017505 AT4G29930.6 33.775 151 78 5 171 307 53 195 1.93e-15 75.1
MsaG017505 AT4G29930.2 33.333 144 85 5 171 307 53 192 2.67e-15 74.3
MsaG017505 AT4G29930.5 33.333 144 85 5 171 307 53 192 4.93e-15 73.9
MsaG017505 AT4G29930.4 50.000 66 32 1 171 235 53 118 2.81e-14 70.9
MsaG017505 AT4G09820.1 30.409 171 103 5 161 327 352 510 2.95e-14 73.9
MsaG017505 AT4G17880.1 33.129 163 89 6 159 303 401 561 4.28e-14 73.6
MsaG017505 AT4G29930.1 50.000 66 32 1 171 235 53 118 9.40e-14 70.5
MsaG017505 AT4G29930.3 50.000 66 32 1 171 235 53 118 1.14e-13 70.5
MsaG017505 AT4G29930.7 50.000 66 32 1 171 235 53 118 1.14e-13 70.5
MsaG017505 AT2G22760.1 26.111 180 112 4 153 312 98 276 1.61e-13 70.5
MsaG017505 AT2G22760.2 26.437 174 107 4 153 306 98 270 4.39e-13 68.9
MsaG017505 AT5G46830.1 33.557 149 83 3 169 303 340 486 1.28e-12 68.9
MsaG017505 AT2G46510.1 41.111 90 43 2 148 227 361 450 2.06e-12 68.6
MsaG017505 AT1G32640.1 31.847 157 78 5 169 303 449 598 3.13e-12 67.8
MsaG017505 AT4G00870.1 39.535 86 40 2 156 229 221 306 3.37e-11 64.3
MsaG017505 AT2G28160.1 40.909 66 39 0 163 228 122 187 4.20e-11 63.5
MsaG017505 AT2G28160.2 40.909 66 39 0 163 228 122 187 4.75e-11 63.5
MsaG017505 AT5G46760.1 42.466 73 40 1 159 229 400 472 9.33e-11 63.5

Find 56 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGATGAAGAGCTTCAGAATT+TGG 0.194817 3:-110076084 MsaT017505.1:CDS
TTGAAAACTACTGGCATTTC+AGG 0.202127 3:+110076023 None:intergenic
GTACCTACCTTGCTTATCTT+AGG 0.245588 3:+110075870 None:intergenic
GCAACAGGAATTGGAGAAAA+AGG 0.270835 3:-110074956 MsaT017505.1:intron
AGATTTCATTGAGGAATTAA+TGG 0.282846 3:-110076438 MsaT017505.1:CDS
TCTTCAACACCACAGATTCT+TGG 0.321672 3:-110076197 MsaT017505.1:CDS
AACACTTTCAATGAAATCTA+TGG 0.323772 3:-110076236 MsaT017505.1:CDS
ATACCCTGCACTTCTGAATA+AGG 0.328974 3:+110074903 None:intergenic
TCTCTTTCGTCTTCTCCTTT+CGG 0.335778 3:+110075929 None:intergenic
CAAGAAGAGTTTGGAAGATA+TGG 0.342140 3:+110076305 None:intergenic
AAGTCTTCTTGAGAAATAAA+TGG 0.343736 3:+110076146 None:intergenic
GCTGCAAACAACATGTAAAA+TGG 0.348415 3:-110076060 MsaT017505.1:CDS
TGTTGACTACAAGAAGAGTT+TGG 0.397391 3:+110076296 None:intergenic
GGCATTTCAGGTGATTGTAT+TGG 0.405729 3:+110076035 None:intergenic
GTCCTTGAAGTTTCTTCGAT+CGG 0.408164 3:+110075973 None:intergenic
TTGATCTTCTTCTCCCATCA+TGG 0.410222 3:+110076115 None:intergenic
TACCTACCTTGCTTATCTTA+GGG 0.413903 3:+110075871 None:intergenic
CACAATGCAGGCTTCTTGCT+CGG 0.422339 3:-110075347 MsaT017505.1:CDS
AGGGTTGAAATTTGTTGTGC+AGG 0.424911 3:-110075460 MsaT017505.1:CDS
ATTTGTTGTGCAGGGAAGCC+AGG 0.426657 3:-110075451 MsaT017505.1:CDS
CTTTGTAGTTTGAGGTAGAG+AGG 0.429500 3:-110075495 MsaT017505.1:intron
TCATTGTTGCTATAGCTTTG+AGG 0.433942 3:+110076269 None:intergenic
TTTCAATGATTTCACAATGC+AGG 0.451446 3:-110075359 MsaT017505.1:CDS
TTTCAACACTGGTAAGGGTA+TGG 0.466525 3:-110076006 MsaT017505.1:CDS
CAAGCCTTATTCAGAAGTGC+AGG 0.468092 3:-110074907 MsaT017505.1:CDS
AACCGATCGAAGAAACTTCA+AGG 0.484937 3:-110075975 MsaT017505.1:CDS
TGTTGAAGATTCATCAAGTA+AGG 0.499336 3:+110076211 None:intergenic
TTACCAGTGTTGAAAACTAC+TGG 0.522074 3:+110076014 None:intergenic
GACTTTCCACTGTCCATGAT+GGG 0.524863 3:-110076128 MsaT017505.1:CDS
GGGTTGAAATTTGTTGTGCA+GGG 0.525508 3:-110075459 MsaT017505.1:CDS
ACAGCCTTCGAAGAATCTAA+TGG 0.532414 3:-110075952 MsaT017505.1:CDS
ACATAGATGGAGTTCTATGA+TGG 0.535755 3:-110076461 None:intergenic
AGACTTTCCACTGTCCATGA+TGG 0.536479 3:-110076129 MsaT017505.1:CDS
ATGGACAGAACAGCTATACT+TGG 0.546390 3:-110075747 MsaT017505.1:CDS
TTATTCAGAAGTGCAGGGTA+TGG 0.549665 3:-110074901 MsaT017505.1:CDS
TTTGAGGTAGAGAGGAGTGC+AGG 0.549939 3:-110075487 MsaT017505.1:CDS
TAGAGAGGAGTGCAGGCACA+AGG 0.551771 3:-110075480 MsaT017505.1:CDS
TAACACATTGTTGAATCTCA+AGG 0.553569 3:+110075389 None:intergenic
TTTGTTGTGCAGGGAAGCCA+GGG 0.555249 3:-110075450 MsaT017505.1:CDS
TTCAGAAGTGCAGGGTATGG+TGG 0.556553 3:-110074898 MsaT017505.1:CDS
GTAAACACATTGGAAGCATT+AGG 0.566951 3:-110075412 MsaT017505.1:CDS
TTTCTGATTAAGATTTCACT+TGG 0.582741 3:+110075621 None:intergenic
TCGGCCATTAGATTCTTCGA+AGG 0.598463 3:+110075948 None:intergenic
CGAAGAATCTAATGGCCGAA+AGG 0.611328 3:-110075944 MsaT017505.1:CDS
TGCTTCCAATGTGTTTACTG+TGG 0.617642 3:+110075417 None:intergenic
AGAGAGGAGTGCAGGCACAA+GGG 0.627694 3:-110075479 MsaT017505.1:CDS
CTTAATCAGAAATTCTCCAA+AGG 0.629828 3:-110075610 MsaT017505.1:intron
TAGTATGAACCAAGAATCTG+TGG 0.634286 3:+110076188 None:intergenic
TCTTCTCCCATCATGGACAG+TGG 0.637946 3:+110076122 None:intergenic
CTATGATGGAGATTTCATTG+AGG 0.638365 3:-110076447 MsaT017505.1:CDS
AATTGTCCCTAAGATAAGCA+AGG 0.652852 3:-110075877 MsaT017505.1:intron
AAGCCTTATTCAGAAGTGCA+GGG 0.666202 3:-110074906 MsaT017505.1:CDS
GCTATCCACAGTAAACACAT+TGG 0.673367 3:-110075422 MsaT017505.1:CDS
TTGCTCGTAGCATTGAAAGA+CGG 0.697294 3:+110075898 None:intergenic
AATGCAGGCTTCTTGCTCGG+AGG 0.698752 3:-110075344 MsaT017505.1:intron
ACTGTGGATAGCAACAACCC+TGG 0.706149 3:+110075433 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 110074885 110076477 110074885 ID=MsaG017505
Chr3 mRNA 110074885 110076477 110074885 ID=MsaT017505.1;Parent=MsaG017505
Chr3 exon 110074885 110074971 110074885 ID=MsaT017505.1.exon4;Parent=MsaT017505.1
Chr3 CDS 110074885 110074971 110074885 ID=cds.MsaT017505.1;Parent=MsaT017505.1
Chr3 exon 110075345 110075509 110075345 ID=MsaT017505.1.exon3;Parent=MsaT017505.1
Chr3 CDS 110075345 110075509 110075345 ID=cds.MsaT017505.1;Parent=MsaT017505.1
Chr3 exon 110075611 110075769 110075611 ID=MsaT017505.1.exon2;Parent=MsaT017505.1
Chr3 CDS 110075611 110075769 110075611 ID=cds.MsaT017505.1;Parent=MsaT017505.1
Chr3 exon 110075878 110076477 110075878 ID=MsaT017505.1.exon1;Parent=MsaT017505.1
Chr3 CDS 110075878 110076477 110075878 ID=cds.MsaT017505.1;Parent=MsaT017505.1
Gene Sequence

>MsaT017505.1

ATGGAGTTCTATGATGGAGATTTCATTGAGGAATTAATGGCTCTAAGAAGAGAAACATATGAAATTACCAATCCATGTCATGAAGAAAATCAATTCTTCTCATCAACAAGTAACTTGAGCTTTGATAACTGTTTTGATCAAAGCTCTTTACCATATCTTCCAAACTCTTCTTGTAGTCAACAAGTTCCTCAAAGCTATAGCAACAATGATCACTACAGTAACACTTTCAATGAAATCTATGGTTCCTTACTTGATGAATCTTCAACACCACAGATTCTTGGTTCATACTATAATAATAGTATTGACACTCCATTTATTTCTCAAGAAGACTTTCCACTGTCCATGATGGGAGAAGAAGATCAAAGTTTGCTTGATGAAGAGCTTCAGAATTTGGAGCTGCAAACAACATGTAAAATGGAGCCAATACAATCACCTGAAATGCCAGTAGTTTTCAACACTGGTAAGGGTATGGAAAGAAAGAACCGATCGAAGAAACTTCAAGGACAGCCTTCGAAGAATCTAATGGCCGAAAGGAGAAGACGAAAGAGATTAAATGACCGTCTTTCAATGCTACGAGCAATTGTCCCTAAGATAAGCAAGATGGACAGAACAGCTATACTTGGAGATACTATTGATTACATGAAAGAGCTTTTAGAGAAAATCAACAATCTGCAACAAGAAATTGAACTAGATTCAAATATGACAAGCATTGTCAAAGATGTCAAACCAAGTGAAATCTTAATCAGAAATTCTCCAAAGTTTGAGGTAGAGAGGAGTGCAGGCACAAGGGTTGAAATTTGTTGTGCAGGGAAGCCAGGGTTGTTGCTATCCACAGTAAACACATTGGAAGCATTAGGCCTTGAGATTCAACAATGTGTTATTAGCTGTTTCAATGATTTCACAATGCAGGCTTCTTGCTCGGAGGAATTGGAGAAAAAGGCAATGCTAAGTTCTGAAGATATTAAGCAAGCCTTATTCAGAAGTGCAGGGTATGGTGGAAGATGTTTGTGA

Protein sequence

>MsaT017505.1

MEFYDGDFIEELMALRRETYEITNPCHEENQFFSSTSNLSFDNCFDQSSLPYLPNSSCSQQVPQSYSNNDHYSNTFNEIYGSLLDESSTPQILGSYYNNSIDTPFISQEDFPLSMMGEEDQSLLDEELQNLELQTTCKMEPIQSPEMPVVFNTGKGMERKNRSKKLQGQPSKNLMAERRRRKRLNDRLSMLRAIVPKISKMDRTAILGDTIDYMKELLEKINNLQQEIELDSNMTSIVKDVKPSEILIRNSPKFEVERSAGTRVEICCAGKPGLLLSTVNTLEALGLEIQQCVISCFNDFTMQASCSEELEKKAMLSSEDIKQALFRSAGYGGRCL*