AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene98206


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene98206.t1 MTR_1g073380 92.424 264 19 1 1 263 329 592 2.75e-176 498
MS.gene98206.t1 MTR_1g073530 88.636 264 27 2 1 263 321 582 1.25e-162 463
MS.gene98206.t1 MTR_1g073590 88.506 261 27 2 4 263 321 579 9.03e-160 456
MS.gene98206.t1 MTR_8g098645 73.585 265 65 3 4 263 76 340 1.09e-136 389
MS.gene98206.t1 MTR_8g098605 68.914 267 55 3 1 263 348 590 1.19e-120 357
MS.gene98206.t1 MTR_8g098635 80.208 192 37 1 72 262 99 290 2.52e-108 315
MS.gene98206.t1 MTR_8g098635 80.208 192 37 1 72 262 182 373 4.80e-107 315
MS.gene98206.t1 MTR_0259s0060 63.536 181 18 3 65 244 14 147 3.36e-69 211
MS.gene98206.t1 MTR_7g078120 48.404 188 96 1 67 253 387 574 7.52e-56 189
MS.gene98206.t1 MTR_7g078120 48.404 188 96 1 67 253 387 574 1.81e-55 189
MS.gene98206.t1 MTR_8g028905 45.161 186 98 3 67 248 408 593 1.67e-47 166
MS.gene98206.t1 MTR_6g071350 72.549 102 28 0 68 169 273 374 8.91e-45 155
MS.gene98206.t1 MTR_1g073420 91.429 70 5 1 195 263 59 128 2.95e-39 133
MS.gene98206.t1 MTR_1g073420 73.469 49 1 1 11 59 19 55 3.80e-13 65.1
MS.gene98206.t1 MTR_5g048010 60.000 100 25 1 70 169 205 289 5.67e-29 112
MS.gene98206.t1 MTR_7g066890 37.059 170 99 3 67 230 194 361 1.36e-28 112
MS.gene98206.t1 MTR_7g066890 37.059 170 99 3 67 230 296 463 7.27e-28 111
MS.gene98206.t1 MTR_3g023780 37.313 201 109 5 48 235 130 326 1.66e-27 110
MS.gene98206.t1 MTR_6g071355 56.701 97 22 2 158 253 1 78 2.53e-24 93.2
MS.gene98206.t1 MTR_7g066880 30.588 170 110 3 67 230 186 353 1.78e-18 84.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene98206.t1 AT4G11400 46.798 203 98 5 65 263 372 568 7.00e-53 180
MS.gene98206.t1 AT4G11400 46.798 203 98 5 65 263 372 568 7.00e-53 180
MS.gene98206.t1 AT2G46040 40.884 181 103 2 59 236 352 531 9.84e-36 134
MS.gene98206.t1 AT2G46040 40.884 181 103 2 59 236 352 531 9.84e-36 134
MS.gene98206.t1 AT2G46040 41.081 185 104 3 56 236 362 545 1.24e-35 134
MS.gene98206.t1 AT5G04110 36.646 161 90 4 67 216 362 521 8.35e-28 112
MS.gene98206.t1 AT5G04110 36.646 161 90 4 67 216 361 520 8.55e-28 112
MS.gene98206.t1 AT5G04110 36.646 161 90 4 67 216 361 520 8.55e-28 112
MS.gene98206.t1 AT1G26580 31.980 197 114 4 65 243 67 261 8.36e-24 99.8
MS.gene98206.t1 AT1G26580 31.980 197 114 4 65 243 133 327 1.09e-23 99.8
MS.gene98206.t1 AT1G26580 31.980 197 114 4 65 243 133 327 1.09e-23 99.8
MS.gene98206.t1 AT1G13880 36.413 184 97 6 65 235 127 303 2.63e-22 95.5
MS.gene98206.t1 AT1G13880 36.413 184 97 6 65 235 126 302 2.77e-22 95.5
MS.gene98206.t1 AT1G13880 36.413 184 97 6 65 235 136 312 3.26e-22 95.5
MS.gene98206.t1 AT2G03470 38.732 142 83 3 105 242 163 304 6.43e-21 91.7
MS.gene98206.t1 AT2G03470 38.732 142 83 3 105 242 164 305 6.52e-21 91.7
MS.gene98206.t1 AT5G04110 36.986 146 79 5 67 200 361 505 3.41e-20 90.1

Find 40 sgRNAs with CRISPR-Local

Find 58 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCATTGGGAATTTGATAAAA+TGG 0.169328 7.1:-56981210 MS.gene98206:CDS
CAATGGACTGGTGTAGTTTA+TGG 0.202655 7.1:-56981428 MS.gene98206:CDS
TCACGAGAATCATCACTAAA+TGG 0.231296 7.1:+56981494 None:intergenic
GATGATGACGAAGTCGAATT+TGG 0.269756 7.1:-56980969 MS.gene98206:CDS
TGATGAAGAAAAGACATTTA+AGG 0.313271 7.1:-56981159 MS.gene98206:CDS
GATGAAGCTGAAGTTTGAAT+TGG 0.326776 7.1:-56981246 MS.gene98206:CDS
GGTCTTGAATCATCTTTAAC+AGG 0.340484 7.1:+56981371 None:intergenic
TTCTTCTTGATCACAACATC+TGG 0.358660 7.1:+56981599 None:intergenic
AATCGTTAGGCACACAAGTA+TGG 0.361974 7.1:-56981394 MS.gene98206:CDS
CATTGGGAATTTGATAAAAT+GGG 0.369620 7.1:-56981209 MS.gene98206:CDS
GAAGTCGAATTTGGATCTTT+TGG 0.370187 7.1:-56980960 MS.gene98206:CDS
CACTCCTTGAATTCAGTTGA+TGG 0.388773 7.1:+56980909 None:intergenic
CGTGATAAGTTTGTTTCTGT+TGG 0.390129 7.1:-56981476 MS.gene98206:CDS
AATGGACTGGTGTAGTTTAT+GGG 0.405764 7.1:-56981427 MS.gene98206:CDS
AAACTACACCAGTCCATTGC+GGG 0.425596 7.1:+56981432 None:intergenic
GTGTCCATCAACTGAATTCA+AGG 0.433131 7.1:-56980913 MS.gene98206:CDS
TTTCTTCATCACCAGTCCAT+TGG 0.435383 7.1:+56981171 None:intergenic
GTCTCTTAAGTTGCATGGTA+TGG 0.438652 7.1:-56981660 MS.gene98206:CDS
ATGAAGCTGAAGTTTGAATT+GGG 0.447468 7.1:-56981245 MS.gene98206:CDS
CGTCCAGTTACTTTCAAAAG+AGG 0.455230 7.1:-56981085 MS.gene98206:CDS
GATTGCATATTGCTGCAAAC+AGG 0.460811 7.1:-56981268 MS.gene98206:CDS
GCTACTGAAACAGATCTTGT+TGG 0.488100 7.1:-56981347 MS.gene98206:CDS
CACGAGAATCATCACTAAAT+GGG 0.488835 7.1:+56981495 None:intergenic
TCCATTGCGGGACTTCCACT+TGG 0.490081 7.1:+56981444 None:intergenic
AGTCCCATGGAGAAAACAAC+TGG 0.495312 7.1:-56981626 MS.gene98206:CDS
GGGACTTCCACTTGGAAAAG+AGG 0.495364 7.1:+56981452 None:intergenic
ACAAGATCTGTTTCAGTAGC+AGG 0.496101 7.1:+56981350 None:intergenic
GTGGAAGTCCCGCAATGGAC+TGG 0.500938 7.1:-56981440 MS.gene98206:CDS
GGGAGTGACTCTAAATCGTT+AGG 0.521416 7.1:-56981407 MS.gene98206:CDS
TCTATGTCTCTTAAGTTGCA+TGG 0.539525 7.1:-56981665 MS.gene98206:CDS
CTATCAGAATCGAGTGACTT+CGG 0.542718 7.1:-56981006 MS.gene98206:CDS
GCGAGGAAGTTTCACTCCAA+TGG 0.542815 7.1:-56981187 MS.gene98206:CDS
GGAATTTGATAAAATGGGCG+AGG 0.560905 7.1:-56981204 MS.gene98206:CDS
TCCAAGTGGAAGTCCCGCAA+TGG 0.584534 7.1:-56981445 MS.gene98206:CDS
GAAGTTTCACTCCAATGGAC+TGG 0.584625 7.1:-56981182 MS.gene98206:CDS
GAAACAGATCTTGTTGGTAG+AGG 0.588593 7.1:-56981341 MS.gene98206:CDS
AGTGTTCAGAGAACAAGTAA+TGG 0.612428 7.1:-56980890 None:intergenic
CTTGTTGGTAGAGGAAGACG+AGG 0.623018 7.1:-56981332 MS.gene98206:CDS
TAAACTACACCAGTCCATTG+CGG 0.655876 7.1:+56981431 None:intergenic
AAAGAGGACAAGAAAAGACA+TGG 0.658301 7.1:-56981069 MS.gene98206:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! CATTGGGAATTTGATAAAAT+GGG - chr7.1:56981346-56981365 MS.gene98206:CDS 25.0%
! TGATGAAGAAAAGACATTTA+AGG - chr7.1:56981396-56981415 MS.gene98206:CDS 25.0%
!! AGTTCCAAAAATACTTGTTT+TGG + chr7.1:56981447-56981466 None:intergenic 25.0%
!!! GTTCCAAAAATACTTGTTTT+GGG + chr7.1:56981446-56981465 None:intergenic 25.0%
ATGAAGCTGAAGTTTGAATT+GGG - chr7.1:56981310-56981329 MS.gene98206:CDS 30.0%
CCATTGGGAATTTGATAAAA+TGG - chr7.1:56981345-56981364 MS.gene98206:CDS 30.0%
! CCATTTTATCAAATTCCCAA+TGG + chr7.1:56981348-56981367 None:intergenic 30.0%
!!! AAAAATACTTGTTTTGGGAG+GGG + chr7.1:56981441-56981460 None:intergenic 30.0%
!!! CAAAAATACTTGTTTTGGGA+GGG + chr7.1:56981442-56981461 None:intergenic 30.0%
AAAGAGGACAAGAAAAGACA+TGG - chr7.1:56981486-56981505 MS.gene98206:CDS 35.0%
CACGAGAATCATCACTAAAT+GGG + chr7.1:56981063-56981082 None:intergenic 35.0%
GATGAAGCTGAAGTTTGAAT+TGG - chr7.1:56981309-56981328 MS.gene98206:CDS 35.0%
GGTCTTGAATCATCTTTAAC+AGG + chr7.1:56981187-56981206 None:intergenic 35.0%
TCACGAGAATCATCACTAAA+TGG + chr7.1:56981064-56981083 None:intergenic 35.0%
TTCTTCTTGATCACAACATC+TGG + chr7.1:56980959-56980978 None:intergenic 35.0%
! CCTCCCAAAACAAGTATTTT+TGG - chr7.1:56981440-56981459 MS.gene98206:CDS 35.0%
! GAAGTCGAATTTGGATCTTT+TGG - chr7.1:56981595-56981614 MS.gene98206:CDS 35.0%
!! AATGGACTGGTGTAGTTTAT+GGG - chr7.1:56981128-56981147 MS.gene98206:CDS 35.0%
!! CGTGATAAGTTTGTTTCTGT+TGG - chr7.1:56981079-56981098 MS.gene98206:CDS 35.0%
!! CTCTTTTGAAAGTAACTGGA+CGG + chr7.1:56981472-56981491 None:intergenic 35.0%
!! TGTCCTCTTTTGAAAGTAAC+TGG + chr7.1:56981476-56981495 None:intergenic 35.0%
!! TTTGGATCTTTTGGTGGTTT+CGG - chr7.1:56981604-56981623 MS.gene98206:CDS 35.0%
!!! CCAAAAATACTTGTTTTGGG+AGG + chr7.1:56981443-56981462 None:intergenic 35.0%
AATCGTTAGGCACACAAGTA+TGG - chr7.1:56981161-56981180 MS.gene98206:CDS 40.0%
ACAAGATCTGTTTCAGTAGC+AGG + chr7.1:56981208-56981227 None:intergenic 40.0%
CACTCCTTGAATTCAGTTGA+TGG + chr7.1:56981649-56981668 None:intergenic 40.0%
CTATCAGAATCGAGTGACTT+CGG - chr7.1:56981549-56981568 MS.gene98206:CDS 40.0%
GATTGCATATTGCTGCAAAC+AGG - chr7.1:56981287-56981306 MS.gene98206:CDS 40.0%
GCTACTGAAACAGATCTTGT+TGG - chr7.1:56981208-56981227 MS.gene98206:CDS 40.0%
GGAATCAGAAAAAAGTCCCA+TGG - chr7.1:56980916-56980935 MS.gene98206:CDS 40.0%
GGAATTTGATAAAATGGGCG+AGG - chr7.1:56981351-56981370 MS.gene98206:CDS 40.0%
GTGTCCATCAACTGAATTCA+AGG - chr7.1:56981642-56981661 MS.gene98206:CDS 40.0%
TAAACTACACCAGTCCATTG+CGG + chr7.1:56981127-56981146 None:intergenic 40.0%
TTTCTTCATCACCAGTCCAT+TGG + chr7.1:56981387-56981406 None:intergenic 40.0%
! CGTCCAGTTACTTTCAAAAG+AGG - chr7.1:56981470-56981489 MS.gene98206:CDS 40.0%
! GAAACAGATCTTGTTGGTAG+AGG - chr7.1:56981214-56981233 MS.gene98206:CDS 40.0%
! GATGATGACGAAGTCGAATT+TGG - chr7.1:56981586-56981605 MS.gene98206:CDS 40.0%
! GGGTTCTGCATTTTACCATT+GGG - chr7.1:56981330-56981349 MS.gene98206:CDS 40.0%
! GTCGAATTTGGATCTTTTGG+TGG - chr7.1:56981598-56981617 MS.gene98206:CDS 40.0%
! GTCTCTTAAGTTGCATGGTA+TGG - chr7.1:56980895-56980914 MS.gene98206:CDS 40.0%
! TGGGTTCTGCATTTTACCAT+TGG - chr7.1:56981329-56981348 MS.gene98206:CDS 40.0%
!! CAATGGACTGGTGTAGTTTA+TGG - chr7.1:56981127-56981146 MS.gene98206:CDS 40.0%
!! TTGCCAGTTGTTTTCTCCAT+GGG + chr7.1:56980935-56980954 None:intergenic 40.0%
!! TTGGATCTTTTGGTGGTTTC+GGG - chr7.1:56981605-56981624 MS.gene98206:CDS 40.0%
!! TTTGCCAGTTGTTTTCTCCA+TGG + chr7.1:56980936-56980955 None:intergenic 40.0%
!!! CTTTTTTCTCACAGCTGCTT+TGG + chr7.1:56980993-56981012 None:intergenic 40.0%
AAACTACACCAGTCCATTGC+GGG + chr7.1:56981126-56981145 None:intergenic 45.0%
AGTCCCATGGAGAAAACAAC+TGG - chr7.1:56980929-56980948 MS.gene98206:CDS 45.0%
GAAGTTTCACTCCAATGGAC+TGG - chr7.1:56981373-56981392 MS.gene98206:CDS 45.0%
GGGAGTGACTCTAAATCGTT+AGG - chr7.1:56981148-56981167 MS.gene98206:CDS 45.0%
! TGTTGGTCCTCTTTTCCAAG+TGG - chr7.1:56981096-56981115 MS.gene98206:CDS 45.0%
GCGAGGAAGTTTCACTCCAA+TGG - chr7.1:56981368-56981387 MS.gene98206:CDS 50.0%
GGGACTTCCACTTGGAAAAG+AGG + chr7.1:56981106-56981125 None:intergenic 50.0%
! CTTGTTGGTAGAGGAAGACG+AGG - chr7.1:56981223-56981242 MS.gene98206:CDS 50.0%
!! GATCTTTTGGTGGTTTCGGG+AGG - chr7.1:56981608-56981627 MS.gene98206:CDS 50.0%
TCCAAGTGGAAGTCCCGCAA+TGG - chr7.1:56981110-56981129 MS.gene98206:CDS 55.0%
TCCATTGCGGGACTTCCACT+TGG + chr7.1:56981114-56981133 None:intergenic 55.0%
GTGGAAGTCCCGCAATGGAC+TGG - chr7.1:56981115-56981134 MS.gene98206:CDS 60.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 56980893 56981684 56980893 ID=MS.gene98206
chr7.1 mRNA 56980893 56981684 56980893 ID=MS.gene98206.t1;Parent=MS.gene98206
chr7.1 exon 56980893 56981684 56980893 ID=MS.gene98206.t1.exon1;Parent=MS.gene98206.t1
chr7.1 CDS 56980893 56981684 56980893 ID=cds.MS.gene98206.t1;Parent=MS.gene98206.t1
Gene Sequence

>MS.gene98206

ATGTCTCTTAAGTTGCATGGTATGGAATCAGAAAAAAGTCCCATGGAGAAAACAACTGGCAAACCAGATGTTGTGATCAAGAAGAAAAAATCAATTGCCAAAGCAGCTGTGAGAAAAAAGAAAAAATCAACTGCAAATGCAGCTGTGACTGAAGAGAAAAAATATGACCCATTTAGTGATGATTCTCGTGATAAGTTTGTTTCTGTTGGTCCTCTTTTCCAAGTGGAAGTCCCGCAATGGACTGGTGTAGTTTATGGGAGTGACTCTAAATCGTTAGGCACACAAGTATGGCCTGTTAAAGATGATTCAAGACCTGCTACTGAAACAGATCTTGTTGGTAGAGGAAGACGAGGAAAGTGTAGCTGCAATGTTCAATGTTCAGTTGACTGTGTAAGATTGCATATTGCTGCAAACAGGATGAAGCTGAAGTTTGAATTGGGTTCTGCATTTTACCATTGGGAATTTGATAAAATGGGCGAGGAAGTTTCACTCCAATGGACTGGTGATGAAGAAAAGACATTTAAGGATATAATGAGTTTAAAAATCCCCTCCCAAAACAAGTATTTTTGGAACTATCCGTCCAGTTACTTTCAAAAGAGGACAAGAAAAGACATGGTGAGATATTACTTCAATGTATATCTTATTCAACTAAGAAGCTATCAGAATCGAGTGACTTCGGAGACTGTTGACAGTGATGATGACGAAGTCGAATTTGGATCTTTTGGTGGTTTCGGGAGGAAAGCTATCAAGTGTCCATCAACTGAATTCAAGGAGTGTTCAGAGAACAAGTAA

Protein sequence

>MS.gene98206.t1

MSLKLHGMESEKSPMEKTTGKPDVVIKKKKSIAKAAVRKKKKSTANAAVTEEKKYDPFSDDSRDKFVSVGPLFQVEVPQWTGVVYGSDSKSLGTQVWPVKDDSRPATETDLVGRGRRGKCSCNVQCSVDCVRLHIAANRMKLKFELGSAFYHWEFDKMGEEVSLQWTGDEEKTFKDIMSLKIPSQNKYFWNYPSSYFQKRTRKDMVRYYFNVYLIQLRSYQNRVTSETVDSDDDEVEFGSFGGFGRKAIKCPSTEFKECSENK