AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene36808

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene36808.t1 MTR_8g014210 92.991 214 15 0 1 214 1 214 4.30e-143 399
MS.gene36808.t1 MTR_8g445780 69.730 185 56 0 1 185 206 390 5.50e-88 265
MS.gene36808.t1 MTR_4g024710 61.574 216 82 1 1 215 116 331 7.82e-82 248
MS.gene36808.t1 MTR_8g014260 58.547 234 89 2 1 226 220 453 1.45e-81 251
MS.gene36808.t1 MTR_4g024745 62.326 215 80 1 1 214 70 284 2.25e-81 245
MS.gene36808.t1 MTR_8g468840 49.339 227 102 5 6 220 221 446 3.78e-53 177
MS.gene36808.t1 MTR_8g077460 64.341 129 46 0 87 215 231 359 1.36e-52 174
MS.gene36808.t1 MTR_2g083840 48.069 233 112 6 1 225 221 452 1.90e-52 176
MS.gene36808.t1 MTR_8g062270 46.983 232 105 7 4 220 222 450 6.34e-49 166
MS.gene36808.t1 MTR_5g092960 47.186 231 102 5 9 220 229 458 4.66e-48 164
MS.gene36808.t1 MTR_8g058970 44.351 239 118 7 1 225 235 472 1.26e-43 153
MS.gene36808.t1 MTR_8g468810 47.596 208 99 7 1 200 224 429 1.77e-43 152
MS.gene36808.t1 MTR_8g467800 40.693 231 120 5 6 220 220 449 7.08e-42 148
MS.gene36808.t1 MTR_4g032730 41.564 243 104 8 10 220 227 463 9.89e-38 137
MS.gene36808.t1 MTR_8g062310 41.232 211 106 7 9 215 216 412 9.91e-33 123
MS.gene36808.t1 MTR_8g014230 68.831 77 24 0 139 215 13 89 6.72e-32 112
MS.gene36808.t1 MTR_8g469020 37.712 236 124 11 1 220 219 447 6.85e-29 113
MS.gene36808.t1 MTR_5g092960 50.694 144 62 2 9 144 229 371 1.60e-28 111
MS.gene36808.t1 MTR_8g468760 38.362 232 93 8 6 220 217 415 2.01e-27 108
MS.gene36808.t1 MTR_8g062010 39.196 199 107 7 33 220 231 426 4.97e-27 107
MS.gene36808.t1 MTR_8g070950 38.462 182 106 5 50 225 248 429 1.25e-25 103
MS.gene36808.t1 MTR_8g062080 35.606 264 120 13 8 225 181 440 1.52e-25 103
MS.gene36808.t1 MTR_8g058965 37.931 232 130 8 1 220 223 452 4.80e-25 102
MS.gene36808.t1 MTR_8g468810 44.667 150 75 5 1 144 224 371 4.92e-24 99.0
MS.gene36808.t1 MTR_2g086020 42.029 138 69 5 93 220 175 311 2.76e-20 87.8
MS.gene36808.t1 MTR_8g014160 30.631 222 87 7 3 215 246 409 2.83e-19 86.3
MS.gene36808.t1 MTR_8g062300 32.645 242 124 8 6 220 244 473 5.73e-19 85.5
MS.gene36808.t1 MTR_4g050250 37.234 188 104 7 1 177 235 419 2.08e-18 83.6
MS.gene36808.t1 MTR_5g084070 32.143 224 138 10 4 222 202 416 1.45e-15 75.5
MS.gene36808.t1 MTR_8g468810 44.828 87 47 1 1 87 224 309 8.46e-13 67.0
MS.gene36808.t1 MTR_7g032380 36.275 102 61 2 128 225 250 351 9.23e-13 67.0
MS.gene36808.t1 MTR_8g468810 44.828 87 47 1 1 87 224 309 1.10e-12 66.6
MS.gene36808.t1 MTR_8g468810 44.828 87 47 1 1 87 224 309 1.19e-12 66.6
MS.gene36808.t1 MTR_7g032370 29.448 163 99 3 67 225 197 347 1.36e-12 66.6
MS.gene36808.t1 MTR_3g115430 36.449 107 64 3 121 225 16 120 1.56e-12 62.8
MS.gene36808.t1 MTR_7g034115 36.735 98 59 1 125 219 274 371 1.77e-12 66.2
MS.gene36808.t1 MTR_1g041245 37.143 105 60 2 128 226 278 382 2.62e-12 65.9
MS.gene36808.t1 MTR_5g080710 32.500 200 124 7 4 199 228 420 3.26e-12 65.9
MS.gene36808.t1 MTR_3g108560 30.263 152 95 3 50 199 214 356 1.39e-11 63.5
MS.gene36808.t1 MTR_2g020180 33.898 118 70 2 103 219 96 206 3.25e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene36808.t1 AT4G26340 28.251 223 141 8 1 215 192 403 9.33e-14 70.1
MS.gene36808.t1 AT3G26920 28.972 214 135 8 8 213 118 322 1.08e-11 63.9
MS.gene36808.t1 AT3G26920 28.972 214 135 8 8 213 118 322 1.08e-11 63.9

Find 47 sgRNAs with CRISPR-Local

Find 67 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATACAGTTCAGTCAAATTTA+AGG 0.198269 8.3:+74665629 None:intergenic
TGATATTTCCGTGGACTTAA+AGG 0.241780 8.3:-74665709 MS.gene36808:CDS
CTTTAAATTGAATAAAAGTT+AGG 0.323748 8.3:+74665814 None:intergenic
AACCTCCTTGGCAATCTCTC+TGG 0.356546 8.3:-74666382 MS.gene36808:CDS
AGGTGTGATACAAGACAATT+AGG 0.379881 8.3:+74665834 None:intergenic
GTTCTTGAAAATTTAGATCA+TGG 0.391710 8.3:+74666155 None:intergenic
TCTGATGTGCCAAGGGCCTC+TGG 0.399227 8.3:-74665661 MS.gene36808:CDS
GATCCGGTGCGTTCATTTCA+AGG 0.404732 8.3:+74666530 None:intergenic
CAGGAACAGTCATCTTTACT+AGG 0.411116 8.3:-74665879 MS.gene36808:CDS
GCGTCCCACCTTCTTTGAAA+AGG 0.432637 8.3:-74666588 MS.gene36808:CDS
ACCTCCTTGGCAATCTCTCT+GGG 0.462671 8.3:-74666381 MS.gene36808:CDS
TTCTTGAAAATTTAGATCAT+GGG 0.468138 8.3:+74666156 None:intergenic
TGCCAAGGAGGTTGTTCAAA+GGG 0.470637 8.3:+74666392 None:intergenic
ATCCCTTTGAACAACCTCCT+TGG 0.481592 8.3:-74666394 MS.gene36808:CDS
ATGTGATTCCGTTGATGTAA+AGG 0.489313 8.3:+74666500 None:intergenic
ATTCAATTTAAAGGATTTCG+TGG 0.496055 8.3:-74665804 MS.gene36808:CDS
TACATCAACGGAATCACATC+CGG 0.498836 8.3:-74666496 MS.gene36808:CDS
GGGACTAAACATCTAGTGTT+GGG 0.507850 8.3:-74666361 MS.gene36808:CDS
GGATGACGGAAGAAAACGGC+TGG 0.517452 8.3:+74666413 None:intergenic
AACAGTCATCTTTACTAGGA+TGG 0.526478 8.3:-74665875 MS.gene36808:CDS
TGGGACTAAACATCTAGTGT+TGG 0.530389 8.3:-74666362 MS.gene36808:CDS
ATGTAAAGGTACTCAAGATC+CGG 0.531961 8.3:+74666514 None:intergenic
ATTATTAGAACTTGAAGCAT+AGG 0.536850 8.3:+74666055 None:intergenic
CAATTAGGAACACATGGTGT+TGG 0.539182 8.3:+74665849 None:intergenic
TTGACTGAACTGTATGCATA+AGG 0.554292 8.3:-74665621 None:intergenic
GGGACGCAAACTTTACCCAT+TGG 0.560025 8.3:+74666604 None:intergenic
TTGCCAAGGAGGTTGTTCAA+AGG 0.562217 8.3:+74666391 None:intergenic
GATTATTGCTGATATTTCCG+TGG 0.562279 8.3:-74665718 MS.gene36808:CDS
TGACACATTCCAGAGGCCCT+TGG 0.564672 8.3:+74665652 None:intergenic
CATCATTGATAATGAAGTTG+AGG 0.566259 8.3:-74666557 MS.gene36808:CDS
AAAGGGATGACGGAAGAAAA+CGG 0.567288 8.3:+74666409 None:intergenic
CTTGAGTACCTTTACATCAA+CGG 0.572815 8.3:-74666508 MS.gene36808:CDS
TCTTGAAAATTTAGATCATG+GGG 0.575256 8.3:+74666157 None:intergenic
TCCCAGAGAGATTGCCAAGG+AGG 0.576483 8.3:+74666380 None:intergenic
GTACTTCTCCTTTAAGTCCA+CGG 0.580895 8.3:+74665701 None:intergenic
ATGTACAAATAGTGGCTGCT+TGG 0.600050 8.3:-74666184 MS.gene36808:intron
GAGGTTGTTCAAAGGGATGA+CGG 0.605555 8.3:+74666399 None:intergenic
ATGACGGAAGAAAACGGCTG+GGG 0.611934 8.3:+74666415 None:intergenic
TTACCTTGAAATGAACGCAC+CGG 0.629323 8.3:-74666533 MS.gene36808:CDS
GTTGGGTCGTTCAACAACCA+AGG 0.635068 8.3:-74666344 MS.gene36808:intron
TCTAATAATTCATAACGACA+AGG 0.637330 8.3:-74666041 MS.gene36808:intron
ACAAGACAATTAGGAACACA+TGG 0.644694 8.3:+74665843 None:intergenic
GATGACGGAAGAAAACGGCT+GGG 0.652963 8.3:+74666414 None:intergenic
TAGTCCCAGAGAGATTGCCA+AGG 0.657681 8.3:+74666377 None:intergenic
GTACAACTTGCACAATGTGG+TGG 0.667122 8.3:-74666458 MS.gene36808:CDS
TTTAAGGTGACACATTCCAG+AGG 0.724983 8.3:+74665645 None:intergenic
CATGTACAACTTGCACAATG+TGG 0.728594 8.3:-74666461 MS.gene36808:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GTAATTTATTTCATAAAAAA+TGG + chr8.3:74666260-74666279 None:intergenic 10.0%
!! AAATTATAAATTGCATCTTA+TGG - chr8.3:74666282-74666301 MS.gene36808:intron 15.0%
!! ATAAAATAAAACTTAAACCT+TGG + chr8.3:74665900-74665919 None:intergenic 15.0%
!! CTTTAAATTGAATAAAAGTT+AGG + chr8.3:74666413-74666432 None:intergenic 15.0%
!!! CTAACTTTTATTCAATTTAA+AGG - chr8.3:74666411-74666430 MS.gene36808:CDS 15.0%
!! TTCTTGAAAATTTAGATCAT+GGG + chr8.3:74666071-74666090 None:intergenic 20.0%
! AATATATATGACATCAGAGA+TGG + chr8.3:74665993-74666012 None:intergenic 25.0%
! ATACAGTTCAGTCAAATTTA+AGG + chr8.3:74666598-74666617 None:intergenic 25.0%
! ATTATTAGAACTTGAAGCAT+AGG + chr8.3:74666172-74666191 None:intergenic 25.0%
! ATTCAATTTAAAGGATTTCG+TGG - chr8.3:74666420-74666439 MS.gene36808:CDS 25.0%
! GTTCTTGAAAATTTAGATCA+TGG + chr8.3:74666072-74666091 None:intergenic 25.0%
! TCTAATAATTCATAACGACA+AGG - chr8.3:74666183-74666202 MS.gene36808:intron 25.0%
! TCTTGAAAATTTAGATCATG+GGG + chr8.3:74666070-74666089 None:intergenic 25.0%
AAAAAATATCTGATGTGCCA+AGG - chr8.3:74666555-74666574 MS.gene36808:CDS 30.0%
AAAAATATCTGATGTGCCAA+GGG - chr8.3:74666556-74666575 MS.gene36808:CDS 30.0%
TTGATGTCATGTACAAATAG+TGG - chr8.3:74666032-74666051 MS.gene36808:intron 30.0%
! ATTGTCAACCTTTTCAAAGA+AGG + chr8.3:74665647-74665666 None:intergenic 30.0%
! GCTGAGTATGTTTTACAAAA+AGG - chr8.3:74666465-74666484 MS.gene36808:CDS 30.0%
! TGTTTTGTCGAAGCTTAATT+TGG - chr8.3:74666208-74666227 MS.gene36808:intron 30.0%
!! CATCATTGATAATGAAGTTG+AGG - chr8.3:74665667-74665686 MS.gene36808:CDS 30.0%
AACAGTCATCTTTACTAGGA+TGG - chr8.3:74666349-74666368 MS.gene36808:CDS 35.0%
ACAAGACAATTAGGAACACA+TGG + chr8.3:74666384-74666403 None:intergenic 35.0%
AGGTGTGATACAAGACAATT+AGG + chr8.3:74666393-74666412 None:intergenic 35.0%
ATAAATTGCATCTTATGGCC+TGG - chr8.3:74666287-74666306 MS.gene36808:intron 35.0%
ATGTGATTCCGTTGATGTAA+AGG + chr8.3:74665727-74665746 None:intergenic 35.0%
CTTGAGTACCTTTACATCAA+CGG - chr8.3:74665716-74665735 MS.gene36808:CDS 35.0%
GATTATTGCTGATATTTCCG+TGG - chr8.3:74666506-74666525 MS.gene36808:CDS 35.0%
GTACATGCTAAAAACTTTGC+CGG + chr8.3:74665750-74665769 None:intergenic 35.0%
TGATATTTCCGTGGACTTAA+AGG - chr8.3:74666515-74666534 MS.gene36808:CDS 35.0%
! TCAACCTTTTCAAAGAAGGT+GGG + chr8.3:74665643-74665662 None:intergenic 35.0%
! TCTATGTTAAGTTGTGTACC+AGG + chr8.3:74666308-74666327 None:intergenic 35.0%
!! ATGTAAAGGTACTCAAGATC+CGG + chr8.3:74665713-74665732 None:intergenic 35.0%
ATGTACAAATAGTGGCTGCT+TGG - chr8.3:74666040-74666059 MS.gene36808:intron 40.0%
CAATTAGGAACACATGGTGT+TGG + chr8.3:74666378-74666397 None:intergenic 40.0%
CAGGAACAGTCATCTTTACT+AGG - chr8.3:74666345-74666364 MS.gene36808:CDS 40.0%
CATGTACAACTTGCACAATG+TGG - chr8.3:74665763-74665782 MS.gene36808:CDS 40.0%
GGGACTAAACATCTAGTGTT+GGG - chr8.3:74665863-74665882 MS.gene36808:CDS 40.0%
GTAAAGATGACTGTTCCTGT+AGG + chr8.3:74666344-74666363 None:intergenic 40.0%
GTACTTCTCCTTTAAGTCCA+CGG + chr8.3:74666526-74666545 None:intergenic 40.0%
TACATCAACGGAATCACATC+CGG - chr8.3:74665728-74665747 MS.gene36808:CDS 40.0%
TGGGACTAAACATCTAGTGT+TGG - chr8.3:74665862-74665881 MS.gene36808:CDS 40.0%
TTACCTTGAAATGAACGCAC+CGG - chr8.3:74665691-74665710 MS.gene36808:CDS 40.0%
! AGGATTTCGTGGATTTTCAG+AGG - chr8.3:74666431-74666450 MS.gene36808:CDS 40.0%
! ATTTCGTGGATTTTCAGAGG+AGG - chr8.3:74666434-74666453 MS.gene36808:CDS 40.0%
! GTCAACCTTTTCAAAGAAGG+TGG + chr8.3:74665644-74665663 None:intergenic 40.0%
! TTTAAGGTGACACATTCCAG+AGG + chr8.3:74666582-74666601 None:intergenic 40.0%
!! AAAGGGATGACGGAAGAAAA+CGG + chr8.3:74665818-74665837 None:intergenic 40.0%
!! GAACATGTTTTGTTGCCTAC+AGG - chr8.3:74666326-74666345 MS.gene36808:intron 40.0%
ACCGAAAAAGAGTGAGCTCT+AGG + chr8.3:74666111-74666130 None:intergenic 45.0%
ATCCCTTTGAACAACCTCCT+TGG - chr8.3:74665830-74665849 MS.gene36808:CDS 45.0%
GAGGTTGTTCAAAGGGATGA+CGG + chr8.3:74665828-74665847 None:intergenic 45.0%
GTACAACTTGCACAATGTGG+TGG - chr8.3:74665766-74665785 MS.gene36808:CDS 45.0%
TGCCAAGGAGGTTGTTCAAA+GGG + chr8.3:74665835-74665854 None:intergenic 45.0%
TTGCCAAGGAGGTTGTTCAA+AGG + chr8.3:74665836-74665855 None:intergenic 45.0%
! GCCTAGAGCTCACTCTTTTT+CGG - chr8.3:74666107-74666126 MS.gene36808:CDS 45.0%
AACCTCCTTGGCAATCTCTC+TGG - chr8.3:74665842-74665861 MS.gene36808:CDS 50.0%
ACCTCCTTGGCAATCTCTCT+GGG - chr8.3:74665843-74665862 MS.gene36808:CDS 50.0%
GATCCGGTGCGTTCATTTCA+AGG + chr8.3:74665697-74665716 None:intergenic 50.0%
GTTGGGTCGTTCAACAACCA+AGG - chr8.3:74665880-74665899 MS.gene36808:intron 50.0%
TAGTCCCAGAGAGATTGCCA+AGG + chr8.3:74665850-74665869 None:intergenic 50.0%
! ATGACGGAAGAAAACGGCTG+GGG + chr8.3:74665812-74665831 None:intergenic 50.0%
! GCGTCCCACCTTCTTTGAAA+AGG - chr8.3:74665636-74665655 MS.gene36808:CDS 50.0%
!! GATGACGGAAGAAAACGGCT+GGG + chr8.3:74665813-74665832 None:intergenic 50.0%
TCCCAGAGAGATTGCCAAGG+AGG + chr8.3:74665847-74665866 None:intergenic 55.0%
TGACACATTCCAGAGGCCCT+TGG + chr8.3:74666575-74666594 None:intergenic 55.0%
!! GGATGACGGAAGAAAACGGC+TGG + chr8.3:74665814-74665833 None:intergenic 55.0%
TCTGATGTGCCAAGGGCCTC+TGG - chr8.3:74666563-74666582 MS.gene36808:CDS 60.0%


Chromosome Type Strat End Strand Name
chr8.3 gene 74665623 74666623 74665623 ID=MS.gene36808
chr8.3 mRNA 74665623 74666623 74665623 ID=MS.gene36808.t1;Parent=MS.gene36808
chr8.3 exon 74666345 74666623 74666345 ID=MS.gene36808.t1.exon1;Parent=MS.gene36808.t1
chr8.3 CDS 74666345 74666623 74666345 ID=cds.MS.gene36808.t1;Parent=MS.gene36808.t1
chr8.3 exon 74666042 74666194 74666042 ID=MS.gene36808.t1.exon2;Parent=MS.gene36808.t1
chr8.3 CDS 74666042 74666194 74666042 ID=cds.MS.gene36808.t1;Parent=MS.gene36808.t1
chr8.3 exon 74665623 74665898 74665623 ID=MS.gene36808.t1.exon3;Parent=MS.gene36808.t1
chr8.3 CDS 74665623 74665898 74665623 ID=cds.MS.gene36808.t1;Parent=MS.gene36808.t1
Gene Sequence

>MS.gene36808

ATGGGTAAAGTTTGCGTCCCACCTTCTTTGAAAAGGTTGACAATCATCATTGATAATGAAGTTGAGGCTTACCTTGAAATGAACGCACCGGATCTTGAGTACCTTTACATCAACGGAATCACATCCGGCAAAGTTTTTAGCATGTACAACTTGCACAATGTGGTGGAAGCACATCTTAATGTTTTTCCCCAGCCGTTTTCTTCCGTCATCCCTTTGAACAACCTCCTTGGCAATCTCTCTGGGACTAAACATCTAGTGTTGGGTCGTTCAACAACCAAGGTTTAAGTTTTATTTTATATTTTCATCAAATGTTATCTCACTTATATAGAGATTAAGTTCAAACTAGTTACAAACTATTGATTAACTACCATCTCTGATGTCATATATATTGTTTTGTACTAATTACTATTTGATGTCATGTACAAATAGTGGCTGCTTGGAGAGCCCCATGATCTAAATTTTCAAGAACTTCGCTATTTGCTTCGCCTAGAGCTCACTCTTTTTCGGTACAACTTCAATTCTGTACTGAACTTGCTTCAAAAGTGTCCTATGCTTCAAGTTCTAATAATTCATAACGACAAGGTTTGTTTTGTCGAAGCTTAATTTGGTTTATATAACTTTGATGTGAAAATTACCATTTTTTATGAAATAAATTACAAAAATTATAAATTGCATCTTATGGCCTGGTACACAACTTAACATAGAACATGTTTTGTTGCCTACAGGAACAGTCATCTTTACTAGGATGGACTCCAACACCATGTGTTCCTAATTGTCTTGTATCACACCTAACTTTTATTCAATTTAAAGGATTTCGTGGATTTTCAGAGGAGGTGTCATTTGCTGAGTATGTTTTACAAAAAGGACTTGTTTTAAAGACAGTGATTATTGCTGATATTTCCGTGGACTTAAAGGAGAAGTACGACATTCTCAAAAAATATCTGATGTGCCAAGGGCCTCTGGAATGTGTCACCTTAAATTTGACTGAACTGTATGCATAA
Protein sequence

>MS.gene36808.t1

MGKVCVPPSLKRLTIIIDNEVEAYLEMNAPDLEYLYINGITSGKVFSMYNLHNVVEAHLNVFPQPFSSVIPLNNLLGNLSGTKHLVLGRSTTKWLLGEPHDLNFQELRYLLRLELTLFRYNFNSVLNLLQKCPMLQVLIIHNDKEQSSLLGWTPTPCVPNCLVSHLTFIQFKGFRGFSEEVSFAEYVLQKGLVLKTVIIADISVDLKEKYDILKKYLMCQGPLECVTLNLTELYA