AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene00328

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene00328.t1 MTR_2g437170 80.097 206 41 0 1 206 207 412 5.72e-117 338
MS.gene00328.t1 MTR_2g437240 75.490 204 48 1 1 204 215 416 5.62e-102 301
MS.gene00328.t1 MTR_2g437160 72.000 200 56 0 1 200 212 411 1.17e-100 297
MS.gene00328.t1 MTR_2g437150 73.604 197 52 0 1 197 207 403 1.86e-99 294
MS.gene00328.t1 MTR_2g437200 78.804 184 39 0 1 184 215 398 2.44e-96 286
MS.gene00328.t1 MTR_2g437960 69.417 206 61 1 1 206 203 406 4.80e-96 285
MS.gene00328.t1 MTR_2g437180 72.081 197 53 1 1 197 199 393 4.06e-95 283
MS.gene00328.t1 MTR_2g437160 73.118 186 50 0 15 200 135 320 4.49e-95 280
MS.gene00328.t1 MTR_2g437960 69.458 203 60 1 1 203 203 403 2.22e-93 279
MS.gene00328.t1 MTR_2g437940 70.098 204 59 1 1 204 171 372 3.81e-93 277
MS.gene00328.t1 MTR_2g438020 70.443 203 57 1 1 203 254 453 7.27e-93 280
MS.gene00328.t1 MTR_2g438010 66.176 204 67 1 1 204 220 421 1.37e-89 269
MS.gene00328.t1 MTR_2g437130 69.231 195 60 0 3 197 190 384 2.20e-89 268
MS.gene00328.t1 MTR_2g437990 66.502 203 66 1 1 203 199 399 3.94e-88 266
MS.gene00328.t1 MTR_2g437100 72.283 184 51 0 1 184 212 395 2.16e-86 261
MS.gene00328.t1 MTR_2g437120 68.367 196 61 1 1 196 201 395 2.25e-85 258
MS.gene00328.t1 MTR_2g076320 65.196 204 69 1 1 204 200 401 3.48e-85 258
MS.gene00328.t1 MTR_2g437060 57.979 188 79 0 5 192 206 393 4.50e-71 221
MS.gene00328.t1 MTR_2g436440 54.688 192 87 0 5 196 197 388 4.01e-67 211
MS.gene00328.t1 MTR_2g437030 54.124 194 89 0 3 196 275 468 1.15e-66 212
MS.gene00328.t1 MTR_2g437020 58.421 190 76 2 5 192 190 378 7.10e-66 207
MS.gene00328.t1 MTR_2g437080 52.604 192 91 0 5 196 191 382 1.27e-65 207
MS.gene00328.t1 MTR_2g436400 53.804 184 85 0 5 188 198 381 3.00e-64 203
MS.gene00328.t1 MTR_4g119550 51.579 190 92 0 3 192 199 388 3.93e-61 196
MS.gene00328.t1 MTR_2g437090 51.462 171 83 0 27 197 1 171 1.65e-60 187
MS.gene00328.t1 MTR_2g437040 51.042 192 94 0 5 196 191 382 8.89e-60 192
MS.gene00328.t1 MTR_2g436460 53.804 184 84 1 3 185 194 377 1.37e-54 178
MS.gene00328.t1 MTR_4g120380 49.721 179 90 0 3 181 191 369 1.12e-52 173
MS.gene00328.t1 MTR_2g437260 45.263 190 102 1 1 188 181 370 3.47e-51 170
MS.gene00328.t1 MTR_4g119580 48.045 179 93 0 3 181 191 369 4.40e-48 161
MS.gene00328.t1 MTR_4g120380 51.250 160 78 0 3 162 191 350 2.50e-47 160
MS.gene00328.t1 MTR_4g120380 32.530 166 90 6 1 149 256 416 1.67e-13 68.6
MS.gene00328.t1 MTR_2g019810 47.647 170 82 3 15 184 197 359 1.47e-39 139
MS.gene00328.t1 MTR_2g019840 43.407 182 99 3 5 184 192 371 3.14e-38 136
MS.gene00328.t1 MTR_4g119570 38.764 178 76 1 3 180 83 227 1.21e-34 123
MS.gene00328.t1 MTR_3g085240 57.778 90 21 1 86 175 176 248 2.15e-24 97.1
MS.gene00328.t1 MTR_3g450500 29.870 154 108 0 28 181 216 369 2.20e-20 87.8
MS.gene00328.t1 MTR_4g007490 30.055 183 126 1 1 181 185 367 2.54e-20 87.8
MS.gene00328.t1 MTR_2g436380 60.000 60 24 0 27 86 1 60 1.00e-16 77.0
MS.gene00328.t1 MTR_8g081000 25.828 151 112 0 31 181 234 384 6.56e-11 61.2
MS.gene00328.t1 MTR_8g081000 25.828 151 112 0 31 181 234 384 9.02e-11 60.8
MS.gene00328.t1 MTR_8g081000 25.828 151 112 0 31 181 234 384 9.15e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene00328.t1 AT5G07900 32.065 184 122 2 1 181 216 399 1.77e-24 99.8
MS.gene00328.t1 AT1G21150 28.889 180 125 2 3 179 205 384 4.53e-16 75.9
MS.gene00328.t1 AT1G21150 28.889 180 125 2 3 179 169 348 4.57e-16 75.9
MS.gene00328.t1 AT1G21150 28.889 180 125 2 3 179 269 448 6.33e-16 75.9
MS.gene00328.t1 AT5G64950 30.286 175 116 2 5 173 192 366 1.41e-14 71.6

Find 36 sgRNAs with CRISPR-Local

Find 48 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTGAACCATTTCGTTATTC+TGG 0.141446 2.1:-56214059 MS.gene00328:CDS
ATCAATTTAATGTCTGATTT+TGG 0.143567 2.1:-56214521 None:intergenic
TTCAATTGATAAGATTAATT+TGG 0.211307 2.1:-56214240 MS.gene00328:CDS
TGGAGGAAGTTAAGAGTTTA+GGG 0.232380 2.1:-56214421 MS.gene00328:CDS
TTGGAGGAAGTTAAGAGTTT+AGG 0.257551 2.1:-56214422 MS.gene00328:CDS
ATTCCTTGGCACTTGCTAAA+AGG 0.273121 2.1:-56214184 MS.gene00328:CDS
AAAGGATTTGATTAAGTCAT+TGG 0.323129 2.1:-56214441 MS.gene00328:CDS
GATCCTTGGACGAATACTTT+TGG 0.330015 2.1:-56214395 MS.gene00328:CDS
TAGACCAACCCCATTTCTTA+AGG 0.338165 2.1:+56214312 None:intergenic
CAGTCAAGGCCATCTACATT+TGG 0.353370 2.1:-56214467 MS.gene00328:CDS
CAAGTTACACATTCGGTAGA+TGG 0.370763 2.1:+56213918 None:intergenic
AAGTTGATGCCCTTAAGAAA+TGG 0.388575 2.1:-56214322 MS.gene00328:CDS
AGAGTTTAGGGTTTGATCCT+TGG 0.397034 2.1:-56214409 MS.gene00328:CDS
AGTTGATGCCCTTAAGAAAT+GGG 0.397811 2.1:-56214321 MS.gene00328:CDS
TTGAACCATTTCGTTATTCT+GGG 0.398296 2.1:-56214058 MS.gene00328:CDS
TCCTTTGAACCAAATGTAGA+TGG 0.407709 2.1:+56214458 None:intergenic
TCAATTGGGTGGAAATTCCT+TGG 0.436411 2.1:-56214198 MS.gene00328:CDS
GCCATCTACATTTGGTTCAA+AGG 0.443477 2.1:-56214459 MS.gene00328:CDS
AGACCAACCCCATTTCTTAA+GGG 0.447273 2.1:+56214313 None:intergenic
AACAATTGTTCCAAGGGCAT+TGG 0.458416 2.1:-56214132 MS.gene00328:CDS
CTGCAATATCTTGTGATGAA+AGG 0.485086 2.1:-56214107 MS.gene00328:CDS
ATCTTGTGATGAAAGGTTTG+AGG 0.509536 2.1:-56214100 MS.gene00328:CDS
GATACATCCTGGTTTCATGT+TGG 0.513158 2.1:-56214264 MS.gene00328:CDS
TGCAGAAAACAATTGTTCCA+AGG 0.522766 2.1:-56214139 MS.gene00328:CDS
TGATTAACAAGTTACACATT+CGG 0.525291 2.1:+56213911 None:intergenic
ACACATTCGGTAGATGGCAT+TGG 0.528449 2.1:+56213924 None:intergenic
CAAGCATTTAGGATACATCC+TGG 0.534523 2.1:-56214275 MS.gene00328:CDS
GCAGAAAACAATTGTTCCAA+GGG 0.535861 2.1:-56214138 MS.gene00328:CDS
TATTGCAGAACCAATGCCCT+TGG 0.552410 2.1:+56214122 None:intergenic
GGATTTGATTAAGTCATTGG+AGG 0.571043 2.1:-56214438 MS.gene00328:CDS
TTCGGTAGATGGCATTGGCA+TGG 0.590388 2.1:+56213929 None:intergenic
TTGCTAGCTCGCTTCAGTCA+AGG 0.593225 2.1:-56214481 MS.gene00328:CDS
ATTCCAAAAGTATTCGTCCA+AGG 0.607263 2.1:+56214392 None:intergenic
ATGCCCTTAAGAAATGGGGT+TGG 0.630132 2.1:-56214316 MS.gene00328:CDS
ATTGAAGCCAACATGAAACC+AGG 0.641650 2.1:+56214257 None:intergenic
GTTGATGCCCTTAAGAAATG+GGG 0.641680 2.1:-56214320 MS.gene00328:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTCAATTGATAAGATTAATT+TGG - chr2.1:56214186-56214205 MS.gene00328:CDS 15.0%
!! AAACTTGAATCAAAAATATG+TGG + chr2.1:56214268-56214287 None:intergenic 20.0%
!! AAAGTTTGAGTAAAAAACTT+TGG - chr2.1:56214074-56214093 MS.gene00328:CDS 20.0%
!! AAGTTTGAGTAAAAAACTTT+GGG - chr2.1:56214075-56214094 MS.gene00328:CDS 20.0%
! AAAGGATTTGATTAAGTCAT+TGG - chr2.1:56213985-56214004 MS.gene00328:CDS 25.0%
!!! AGTTTTTGGGTTAATCAATT+GGG - chr2.1:56214214-56214233 MS.gene00328:CDS 25.0%
!!! TAATTTGGTGATGAGTTTTT+GGG - chr2.1:56214201-56214220 MS.gene00328:CDS 25.0%
!!! TTAATTTGGTGATGAGTTTT+TGG - chr2.1:56214200-56214219 MS.gene00328:CDS 25.0%
TTGAACCATTTCGTTATTCT+GGG - chr2.1:56214368-56214387 MS.gene00328:CDS 30.0%
! ATTTTCCCAGAATAACGAAA+TGG + chr2.1:56214376-56214395 None:intergenic 30.0%
!! CAAGTTTGTTTTCAGCTTTA+AGG - chr2.1:56214405-56214424 MS.gene00328:CDS 30.0%
!!! AAGCTGTTTTTCAAGCATTT+AGG - chr2.1:56214140-56214159 MS.gene00328:CDS 30.0%
!!! GAATACTTTTGGAATTGCTT+TGG - chr2.1:56214042-56214061 MS.gene00328:CDS 30.0%
!!! GAGTTTTTGGGTTAATCAAT+TGG - chr2.1:56214213-56214232 MS.gene00328:CDS 30.0%
ATCTTGTGATGAAAGGTTTG+AGG - chr2.1:56214326-56214345 MS.gene00328:CDS 35.0%
CTGCAATATCTTGTGATGAA+AGG - chr2.1:56214319-56214338 MS.gene00328:CDS 35.0%
GCAGAAAACAATTGTTCCAA+GGG - chr2.1:56214288-56214307 MS.gene00328:CDS 35.0%
GGATTTGATTAAGTCATTGG+AGG - chr2.1:56213988-56214007 MS.gene00328:CDS 35.0%
GTTGAACCATTTCGTTATTC+TGG - chr2.1:56214367-56214386 MS.gene00328:CDS 35.0%
TCCTTTGAACCAAATGTAGA+TGG + chr2.1:56213971-56213990 None:intergenic 35.0%
TGCAGAAAACAATTGTTCCA+AGG - chr2.1:56214287-56214306 MS.gene00328:CDS 35.0%
TGGAGGAAGTTAAGAGTTTA+GGG - chr2.1:56214005-56214024 MS.gene00328:CDS 35.0%
TTGGAGGAAGTTAAGAGTTT+AGG - chr2.1:56214004-56214023 MS.gene00328:CDS 35.0%
! AGTTGATGCCCTTAAGAAAT+GGG - chr2.1:56214105-56214124 MS.gene00328:CDS 35.0%
!! AAGTTGATGCCCTTAAGAAA+TGG - chr2.1:56214104-56214123 MS.gene00328:CDS 35.0%
!! ATTCCAAAAGTATTCGTCCA+AGG + chr2.1:56214037-56214056 None:intergenic 35.0%
!!! GTTTGTTTTCAGCTTTAAGG+AGG - chr2.1:56214408-56214427 MS.gene00328:CDS 35.0%
!!! TTTTGGGTTAATCAATTGGG+TGG - chr2.1:56214217-56214236 MS.gene00328:CDS 35.0%
AGACCAACCCCATTTCTTAA+GGG + chr2.1:56214116-56214135 None:intergenic 40.0%
ATTGAAGCCAACATGAAACC+AGG + chr2.1:56214172-56214191 None:intergenic 40.0%
CAAGTTACACATTCGGTAGA+TGG + chr2.1:56214511-56214530 None:intergenic 40.0%
GATACATCCTGGTTTCATGT+TGG - chr2.1:56214162-56214181 MS.gene00328:CDS 40.0%
GTTGATGCCCTTAAGAAATG+GGG - chr2.1:56214106-56214125 MS.gene00328:CDS 40.0%
TAGACCAACCCCATTTCTTA+AGG + chr2.1:56214117-56214136 None:intergenic 40.0%
TCAATTGGGTGGAAATTCCT+TGG - chr2.1:56214228-56214247 MS.gene00328:CDS 40.0%
! AACAATTGTTCCAAGGGCAT+TGG - chr2.1:56214294-56214313 MS.gene00328:CDS 40.0%
! AGAGTTTAGGGTTTGATCCT+TGG - chr2.1:56214017-56214036 MS.gene00328:CDS 40.0%
! ATTCCTTGGCACTTGCTAAA+AGG - chr2.1:56214242-56214261 MS.gene00328:CDS 40.0%
! CAAGCATTTAGGATACATCC+TGG - chr2.1:56214151-56214170 MS.gene00328:CDS 40.0%
! GATCCTTGGACGAATACTTT+TGG - chr2.1:56214031-56214050 MS.gene00328:CDS 40.0%
! GCCATCTACATTTGGTTCAA+AGG - chr2.1:56213967-56213986 MS.gene00328:CDS 40.0%
ACACATTCGGTAGATGGCAT+TGG + chr2.1:56214505-56214524 None:intergenic 45.0%
ATGCCCTTAAGAAATGGGGT+TGG - chr2.1:56214110-56214129 MS.gene00328:CDS 45.0%
CAGTCAAGGCCATCTACATT+TGG - chr2.1:56213959-56213978 MS.gene00328:CDS 45.0%
TATTGCAGAACCAATGCCCT+TGG + chr2.1:56214307-56214326 None:intergenic 45.0%
TTGCTAGCTCGCTTCAGTCA+AGG - chr2.1:56213945-56213964 MS.gene00328:CDS 50.0%
! TGGCCTTTTAGCAAGTGCCA+AGG + chr2.1:56214248-56214267 None:intergenic 50.0%
!! TTCGGTAGATGGCATTGGCA+TGG + chr2.1:56214500-56214519 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 56213914 56214534 56213914 ID=MS.gene00328
chr2.1 mRNA 56213914 56214534 56213914 ID=MS.gene00328.t1;Parent=MS.gene00328
chr2.1 exon 56213914 56214534 56213914 ID=MS.gene00328.t1.exon1;Parent=MS.gene00328.t1
chr2.1 CDS 56213914 56214534 56213914 ID=cds.MS.gene00328.t1;Parent=MS.gene00328.t1
Gene Sequence

>MS.gene00328

ATGTCTGATTTTGGAGTTTCTGATTCTGTCATTGCTAGCTCGCTTCAGTCAAGGCCATCTACATTTGGTTCAAAGGATTTGATTAAGTCATTGGAGGAAGTTAAGAGTTTAGGGTTTGATCCTTGGACGAATACTTTTGGAATTGCTTTGGCAGCTAAGAAAAGTTTGAGTAAAAAACTTTGGGATGAGAAAGTTGATGCCCTTAAGAAATGGGGTTGGTCTAATGAAGCTGTTTTTCAAGCATTTAGGATACATCCTGGTTTCATGTTGGCTTCAATTGATAAGATTAATTTGGTGATGAGTTTTTGGGTTAATCAATTGGGTGGAAATTCCTTGGCACTTGCTAAAAGGCCACATATTTTTGATTCAAGTTTGCAGAAAACAATTGTTCCAAGGGCATTGGTTCTGCAATATCTTGTGATGAAAGGTTTGAGGAAAAAGAATGCAAGCTTAGTTGAACCATTTCGTTATTCTGGGAAAATGTTCTTGAGCAAGTTTGTTTTCAGCTTTAAGGAGGAGTCTGATTATCTATTAAAGTTATATGACGAAAAAATGAAACTTGCATACACAAAAGAGAACAATGCCATGCCAATGCCATCTACCGAATGTGTAACTTGTTAA
Protein sequence

>MS.gene00328.t1

MSDFGVSDSVIASSLQSRPSTFGSKDLIKSLEEVKSLGFDPWTNTFGIALAAKKSLSKKLWDEKVDALKKWGWSNEAVFQAFRIHPGFMLASIDKINLVMSFWVNQLGGNSLALAKRPHIFDSSLQKTIVPRALVLQYLVMKGLRKKNASLVEPFRYSGKMFLSKFVFSFKEESDYLLKLYDEKMKLAYTKENNAMPMPSTECVTC