AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene36941

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene36941.t1 MTR_8g014210 93.458 214 14 0 1 214 1 214 8.40e-144 401
MS.gene36941.t1 MTR_8g445780 69.730 185 56 0 1 185 206 390 8.30e-88 265
MS.gene36941.t1 MTR_4g024710 61.574 216 82 1 1 215 116 331 2.27e-82 249
MS.gene36941.t1 MTR_8g014260 58.547 234 89 2 1 226 220 453 5.18e-82 252
MS.gene36941.t1 MTR_4g024745 62.326 215 80 1 1 214 70 284 6.57e-82 246
MS.gene36941.t1 MTR_8g468840 49.339 227 102 5 6 220 221 446 2.32e-53 178
MS.gene36941.t1 MTR_2g083840 48.069 233 112 6 1 225 221 452 5.11e-53 177
MS.gene36941.t1 MTR_8g077460 64.341 129 46 0 87 215 231 359 9.84e-53 174
MS.gene36941.t1 MTR_8g062270 46.983 232 105 7 4 220 222 450 2.59e-49 167
MS.gene36941.t1 MTR_5g092960 47.186 231 102 5 9 220 229 458 4.02e-48 164
MS.gene36941.t1 MTR_8g058970 44.351 239 118 7 1 225 235 472 1.41e-43 153
MS.gene36941.t1 MTR_8g468810 47.596 208 99 7 1 200 224 429 1.53e-43 152
MS.gene36941.t1 MTR_8g467800 41.102 236 112 6 6 220 220 449 1.58e-42 150
MS.gene36941.t1 MTR_4g032730 41.564 243 104 8 10 220 227 463 1.05e-37 137
MS.gene36941.t1 MTR_8g062310 40.090 222 114 8 9 225 216 423 7.06e-33 123
MS.gene36941.t1 MTR_8g014230 68.831 77 24 0 139 215 13 89 6.50e-32 112
MS.gene36941.t1 MTR_8g469020 42.391 184 89 8 50 220 268 447 9.08e-29 112
MS.gene36941.t1 MTR_5g092960 50.694 144 62 2 9 144 229 371 1.46e-28 111
MS.gene36941.t1 MTR_8g468760 38.362 232 93 8 6 220 217 415 1.03e-27 109
MS.gene36941.t1 MTR_8g062010 38.693 199 110 6 33 220 229 426 2.56e-27 108
MS.gene36941.t1 MTR_8g062080 35.985 264 119 13 8 225 181 440 3.17e-26 105
MS.gene36941.t1 MTR_8g070950 37.306 193 115 5 39 225 237 429 5.55e-26 105
MS.gene36941.t1 MTR_8g058965 37.931 232 130 8 1 220 223 452 3.67e-25 102
MS.gene36941.t1 MTR_8g468810 44.667 150 75 5 1 144 224 371 3.67e-24 99.4
MS.gene36941.t1 MTR_8g014160 31.944 216 92 6 3 215 246 409 2.28e-20 89.4
MS.gene36941.t1 MTR_2g086020 42.029 138 69 5 93 220 175 311 2.59e-20 87.8
MS.gene36941.t1 MTR_8g062300 32.645 242 124 8 6 220 244 473 4.38e-19 85.9
MS.gene36941.t1 MTR_4g050250 37.234 188 104 7 1 177 235 419 1.80e-18 84.0
MS.gene36941.t1 MTR_5g084070 33.005 203 119 8 4 199 202 394 6.95e-16 76.3
MS.gene36941.t1 MTR_7g032370 29.448 163 99 3 67 225 197 347 8.26e-13 67.0
MS.gene36941.t1 MTR_8g468810 44.828 87 47 1 1 87 224 309 9.77e-13 66.6
MS.gene36941.t1 MTR_7g032380 36.275 102 61 2 128 225 250 351 1.07e-12 67.0
MS.gene36941.t1 MTR_8g468810 44.828 87 47 1 1 87 224 309 1.17e-12 66.6
MS.gene36941.t1 MTR_8g468810 44.828 87 47 1 1 87 224 309 1.35e-12 66.6
MS.gene36941.t1 MTR_3g115430 36.449 107 64 3 121 225 16 120 1.56e-12 62.8
MS.gene36941.t1 MTR_7g034115 36.735 98 59 1 125 219 274 371 1.95e-12 66.2
MS.gene36941.t1 MTR_1g041245 37.143 105 60 2 128 226 278 382 2.82e-12 65.9
MS.gene36941.t1 MTR_5g080710 32.000 200 125 7 4 199 228 420 3.97e-12 65.5
MS.gene36941.t1 MTR_3g108560 30.263 152 95 3 50 199 214 356 2.29e-11 63.2
MS.gene36941.t1 MTR_2g020180 33.898 118 70 2 103 219 96 206 2.44e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene36941.t1 AT4G26340 28.251 223 141 8 1 215 192 403 5.80e-14 70.9
MS.gene36941.t1 AT3G26920 29.439 214 134 8 8 213 118 322 6.42e-12 64.7
MS.gene36941.t1 AT3G26920 29.439 214 134 8 8 213 118 322 6.42e-12 64.7

Find 48 sgRNAs with CRISPR-Local

Find 66 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGATATTTCCGTGGACTTAA+AGG 0.241780 8.4:-76851728 MS.gene36941:CDS
CTTTAAATTGAATAAAAGTT+AGG 0.323748 8.4:+76851833 None:intergenic
AACCTCCTTGGCAATCTCTC+TGG 0.356546 8.4:-76852401 MS.gene36941:CDS
GCCTAGAGCTCACTCTTTAT+CGG 0.369310 8.4:-76852136 MS.gene36941:CDS
AGGTGTGATACAAGACAATT+AGG 0.379881 8.4:+76851853 None:intergenic
GTTCTTGAAAATTTAGATCA+TGG 0.391710 8.4:+76852174 None:intergenic
TCTGATGTGCCAAGGGCCTC+TGG 0.399227 8.4:-76851680 MS.gene36941:CDS
GATCCGGTGCGTTCATTTCA+AGG 0.404732 8.4:+76852549 None:intergenic
CAGGAACAGTCATCTTTACT+AGG 0.411116 8.4:-76851898 MS.gene36941:CDS
GCGTCCCACCTTCTTTGAAA+AGG 0.432637 8.4:-76852607 MS.gene36941:CDS
ACCTCCTTGGCAATCTCTCT+GGG 0.462671 8.4:-76852400 MS.gene36941:CDS
TTCTTGAAAATTTAGATCAT+GGG 0.468138 8.4:+76852175 None:intergenic
TGCCAAGGAGGTTGTTCAAA+GGG 0.470637 8.4:+76852411 None:intergenic
ATCCCTTTGAACAACCTCCT+TGG 0.481592 8.4:-76852413 MS.gene36941:CDS
ATGTGATTCCGTTGATGTAA+AGG 0.489313 8.4:+76852519 None:intergenic
ATTCAATTTAAAGGATTTCG+TGG 0.496055 8.4:-76851823 MS.gene36941:CDS
GGGACTAAACATCTAGTGTT+GGG 0.507850 8.4:-76852380 MS.gene36941:CDS
TACATCAACGGAATCACATC+CGG 0.515817 8.4:-76852515 MS.gene36941:CDS
GGATGACGGAAGAAAACGGC+TGG 0.517452 8.4:+76852432 None:intergenic
AACAGTCATCTTTACTAGGA+TGG 0.526478 8.4:-76851894 MS.gene36941:CDS
TGGGACTAAACATCTAGTGT+TGG 0.530389 8.4:-76852381 MS.gene36941:CDS
ATGTAAAGGTACTCAAGATC+CGG 0.531961 8.4:+76852533 None:intergenic
TGACACATTCCAGAGGCCCT+TGG 0.534109 8.4:+76851671 None:intergenic
ATTATTAGAACTTGAAGCAT+AGG 0.536850 8.4:+76852074 None:intergenic
CAATTAGGAACACATGGTGT+TGG 0.539182 8.4:+76851868 None:intergenic
TTGACTGAACTGTATGCATA+AGG 0.554292 8.4:-76851640 None:intergenic
TTGCCAAGGAGGTTGTTCAA+AGG 0.562217 8.4:+76852410 None:intergenic
GATTATTGCTGATATTTCCG+TGG 0.562279 8.4:-76851737 MS.gene36941:CDS
CATCATTGATAATGAAGTTG+AGG 0.566259 8.4:-76852576 MS.gene36941:CDS
AAAGGGATGACGGAAGAAAA+CGG 0.567288 8.4:+76852428 None:intergenic
CTTGAGTACCTTTACATCAA+CGG 0.572815 8.4:-76852527 MS.gene36941:CDS
TCTTGAAAATTTAGATCATG+GGG 0.575256 8.4:+76852176 None:intergenic
TCCCAGAGAGATTGCCAAGG+AGG 0.576483 8.4:+76852399 None:intergenic
GTACTTCTCCTTTAAGTCCA+CGG 0.580895 8.4:+76851720 None:intergenic
ATGTACAAATAGTGGCTGCT+TGG 0.600050 8.4:-76852203 MS.gene36941:intron
GAGGTTGTTCAAAGGGATGA+CGG 0.605555 8.4:+76852418 None:intergenic
ACCGATAAAGAGTGAGCTCT+AGG 0.611582 8.4:+76852135 None:intergenic
ATGACGGAAGAAAACGGCTG+GGG 0.611934 8.4:+76852434 None:intergenic
TTACCTTGAAATGAACGCAC+CGG 0.629323 8.4:-76852552 MS.gene36941:CDS
GTTGGGTCGTTCAACAACCA+AGG 0.635068 8.4:-76852363 MS.gene36941:intron
TCTAATAATTCATAACGACA+AGG 0.637330 8.4:-76852060 MS.gene36941:intron
ACAAGACAATTAGGAACACA+TGG 0.644694 8.4:+76851862 None:intergenic
GATGACGGAAGAAAACGGCT+GGG 0.652963 8.4:+76852433 None:intergenic
TAGTCCCAGAGAGATTGCCA+AGG 0.657681 8.4:+76852396 None:intergenic
GTACAACTTGCACAATGTGG+TGG 0.667122 8.4:-76852477 MS.gene36941:CDS
TGGGACGCAAACTTTACCCA+TGG 0.667733 8.4:+76852622 None:intergenic
TTTAAGTTGACACATTCCAG+AGG 0.695966 8.4:+76851664 None:intergenic
CATGTACAACTTGCACAATG+TGG 0.728594 8.4:-76852480 MS.gene36941:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GTAATTTATTTCATAAAAAA+TGG + chr8.4:76852279-76852298 None:intergenic 10.0%
!! AAATTATAAATTGCATCTTA+TGG - chr8.4:76852301-76852320 MS.gene36941:intron 15.0%
!! ATAAAATAAAACTTAAACCT+TGG + chr8.4:76851919-76851938 None:intergenic 15.0%
!! CTTTAAATTGAATAAAAGTT+AGG + chr8.4:76852432-76852451 None:intergenic 15.0%
!!! CTAACTTTTATTCAATTTAA+AGG - chr8.4:76852430-76852449 MS.gene36941:CDS 15.0%
!! TTCTTGAAAATTTAGATCAT+GGG + chr8.4:76852090-76852109 None:intergenic 20.0%
! AATATATATGACATCAGAGA+CGG + chr8.4:76852012-76852031 None:intergenic 25.0%
! ATTATTAGAACTTGAAGCAT+AGG + chr8.4:76852191-76852210 None:intergenic 25.0%
! ATTCAATTTAAAGGATTTCG+TGG - chr8.4:76852439-76852458 MS.gene36941:CDS 25.0%
! GTTCTTGAAAATTTAGATCA+TGG + chr8.4:76852091-76852110 None:intergenic 25.0%
! TCTAATAATTCATAACGACA+AGG - chr8.4:76852202-76852221 MS.gene36941:intron 25.0%
! TCTTGAAAATTTAGATCATG+GGG + chr8.4:76852089-76852108 None:intergenic 25.0%
AAAAAATATCTGATGTGCCA+AGG - chr8.4:76852574-76852593 MS.gene36941:CDS 30.0%
AAAAATATCTGATGTGCCAA+GGG - chr8.4:76852575-76852594 MS.gene36941:CDS 30.0%
TTGATGTCATGTACAAATAG+TGG - chr8.4:76852051-76852070 MS.gene36941:intron 30.0%
! ATTGTCAACCTTTTCAAAGA+AGG + chr8.4:76851666-76851685 None:intergenic 30.0%
! GCTGAGTATGTTTTACAAAA+AGG - chr8.4:76852484-76852503 MS.gene36941:CDS 30.0%
! TGTTTTGTCGAAGCTTAATT+TGG - chr8.4:76852227-76852246 MS.gene36941:intron 30.0%
!! CATCATTGATAATGAAGTTG+AGG - chr8.4:76851686-76851705 MS.gene36941:CDS 30.0%
AACAGTCATCTTTACTAGGA+TGG - chr8.4:76852368-76852387 MS.gene36941:CDS 35.0%
ACAAGACAATTAGGAACACA+TGG + chr8.4:76852403-76852422 None:intergenic 35.0%
AGGTGTGATACAAGACAATT+AGG + chr8.4:76852412-76852431 None:intergenic 35.0%
ATAAATTGCATCTTATGGCC+TGG - chr8.4:76852306-76852325 MS.gene36941:intron 35.0%
ATGTGATTCCGTTGATGTAA+AGG + chr8.4:76851746-76851765 None:intergenic 35.0%
CTTGAGTACCTTTACATCAA+CGG - chr8.4:76851735-76851754 MS.gene36941:CDS 35.0%
GATTATTGCTGATATTTCCG+TGG - chr8.4:76852525-76852544 MS.gene36941:CDS 35.0%
TGATATTTCCGTGGACTTAA+AGG - chr8.4:76852534-76852553 MS.gene36941:CDS 35.0%
! TCAACCTTTTCAAAGAAGGT+GGG + chr8.4:76851662-76851681 None:intergenic 35.0%
! TCTATGTTAAGTTGTGTACC+AGG + chr8.4:76852327-76852346 None:intergenic 35.0%
!! ATGTAAAGGTACTCAAGATC+CGG + chr8.4:76851732-76851751 None:intergenic 35.0%
!! TTTAAGTTGACACATTCCAG+AGG + chr8.4:76852601-76852620 None:intergenic 35.0%
ATGTACAAATAGTGGCTGCT+TGG - chr8.4:76852059-76852078 MS.gene36941:intron 40.0%
CAATTAGGAACACATGGTGT+TGG + chr8.4:76852397-76852416 None:intergenic 40.0%
CAGGAACAGTCATCTTTACT+AGG - chr8.4:76852364-76852383 MS.gene36941:CDS 40.0%
CATGTACAACTTGCACAATG+TGG - chr8.4:76851782-76851801 MS.gene36941:CDS 40.0%
GGGACTAAACATCTAGTGTT+GGG - chr8.4:76851882-76851901 MS.gene36941:CDS 40.0%
GTAAAGATGACTGTTCCTGT+AGG + chr8.4:76852363-76852382 None:intergenic 40.0%
GTACATGCTAAAAACTTCGC+CGG + chr8.4:76851769-76851788 None:intergenic 40.0%
GTACTTCTCCTTTAAGTCCA+CGG + chr8.4:76852545-76852564 None:intergenic 40.0%
TACATCAACGGAATCACATC+CGG - chr8.4:76851747-76851766 MS.gene36941:CDS 40.0%
TGGGACTAAACATCTAGTGT+TGG - chr8.4:76851881-76851900 MS.gene36941:CDS 40.0%
TTACCTTGAAATGAACGCAC+CGG - chr8.4:76851710-76851729 MS.gene36941:CDS 40.0%
! AGGATTTCGTGGATTTTCAG+AGG - chr8.4:76852450-76852469 MS.gene36941:CDS 40.0%
! ATTTCGTGGATTTTCAGAGG+AGG - chr8.4:76852453-76852472 MS.gene36941:CDS 40.0%
! GTCAACCTTTTCAAAGAAGG+TGG + chr8.4:76851663-76851682 None:intergenic 40.0%
!! AAAGGGATGACGGAAGAAAA+CGG + chr8.4:76851837-76851856 None:intergenic 40.0%
!! GAACATGTTTTGTTGCCTAC+AGG - chr8.4:76852345-76852364 MS.gene36941:intron 40.0%
ACCGATAAAGAGTGAGCTCT+AGG + chr8.4:76852130-76852149 None:intergenic 45.0%
ATCCCTTTGAACAACCTCCT+TGG - chr8.4:76851849-76851868 MS.gene36941:CDS 45.0%
GAGGTTGTTCAAAGGGATGA+CGG + chr8.4:76851847-76851866 None:intergenic 45.0%
GCCTAGAGCTCACTCTTTAT+CGG - chr8.4:76852126-76852145 MS.gene36941:CDS 45.0%
GTACAACTTGCACAATGTGG+TGG - chr8.4:76851785-76851804 MS.gene36941:CDS 45.0%
TGCCAAGGAGGTTGTTCAAA+GGG + chr8.4:76851854-76851873 None:intergenic 45.0%
TTGCCAAGGAGGTTGTTCAA+AGG + chr8.4:76851855-76851874 None:intergenic 45.0%
AACCTCCTTGGCAATCTCTC+TGG - chr8.4:76851861-76851880 MS.gene36941:CDS 50.0%
ACCTCCTTGGCAATCTCTCT+GGG - chr8.4:76851862-76851881 MS.gene36941:CDS 50.0%
GATCCGGTGCGTTCATTTCA+AGG + chr8.4:76851716-76851735 None:intergenic 50.0%
GTTGGGTCGTTCAACAACCA+AGG - chr8.4:76851899-76851918 MS.gene36941:intron 50.0%
TAGTCCCAGAGAGATTGCCA+AGG + chr8.4:76851869-76851888 None:intergenic 50.0%
! ATGACGGAAGAAAACGGCTG+GGG + chr8.4:76851831-76851850 None:intergenic 50.0%
! GCGTCCCACCTTCTTTGAAA+AGG - chr8.4:76851655-76851674 MS.gene36941:CDS 50.0%
!! GATGACGGAAGAAAACGGCT+GGG + chr8.4:76851832-76851851 None:intergenic 50.0%
TCCCAGAGAGATTGCCAAGG+AGG + chr8.4:76851866-76851885 None:intergenic 55.0%
TGACACATTCCAGAGGCCCT+TGG + chr8.4:76852594-76852613 None:intergenic 55.0%
!! GGATGACGGAAGAAAACGGC+TGG + chr8.4:76851833-76851852 None:intergenic 55.0%
TCTGATGTGCCAAGGGCCTC+TGG - chr8.4:76852582-76852601 MS.gene36941:CDS 60.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 76851642 76852642 76851642 ID=MS.gene36941
chr8.4 mRNA 76851642 76852642 76851642 ID=MS.gene36941.t1;Parent=MS.gene36941
chr8.4 exon 76852364 76852642 76852364 ID=MS.gene36941.t1.exon1;Parent=MS.gene36941.t1
chr8.4 CDS 76852364 76852642 76852364 ID=cds.MS.gene36941.t1;Parent=MS.gene36941.t1
chr8.4 exon 76852061 76852213 76852061 ID=MS.gene36941.t1.exon2;Parent=MS.gene36941.t1
chr8.4 CDS 76852061 76852213 76852061 ID=cds.MS.gene36941.t1;Parent=MS.gene36941.t1
chr8.4 exon 76851642 76851917 76851642 ID=MS.gene36941.t1.exon3;Parent=MS.gene36941.t1
chr8.4 CDS 76851642 76851917 76851642 ID=cds.MS.gene36941.t1;Parent=MS.gene36941.t1
Gene Sequence

>MS.gene36941

ATGGGTAAAGTTTGCGTCCCACCTTCTTTGAAAAGGTTGACAATCATCATTGATAATGAAGTTGAGGCTTACCTTGAAATGAACGCACCGGATCTTGAGTACCTTTACATCAACGGAATCACATCCGGCGAAGTTTTTAGCATGTACAACTTGCACAATGTGGTGGAAGCACATCTTAATGTTTTTCCCCAGCCGTTTTCTTCCGTCATCCCTTTGAACAACCTCCTTGGCAATCTCTCTGGGACTAAACATCTAGTGTTGGGTCGTTCAACAACCAAGGTTTAAGTTTTATTTTATATTTTCATCAAATGTTATCTCACTTATATAGAGATTAAGTTCAAACTAGTTACAAACTATTGATTAACTACCGTCTCTGATGTCATATATATTGTTTTGTACTAATTACTATTTGATGTCATGTACAAATAGTGGCTGCTTGGAGAGCCCCATGATCTAAATTTTCAAGAACTTCGCTATTTGCTTCGCCTAGAGCTCACTCTTTATCGGTACAACTTCAATTCTGTACTGAACTTGCTTCAAAAGTGTCCTATGCTTCAAGTTCTAATAATTCATAACGACAAGGTTTGTTTTGTCGAAGCTTAATTTGGTTTATATAACTTTGATGTGAAAATTACCATTTTTTATGAAATAAATTACAAAAATTATAAATTGCATCTTATGGCCTGGTACACAACTTAACATAGAACATGTTTTGTTGCCTACAGGAACAGTCATCTTTACTAGGATGGACTCCAACACCATGTGTTCCTAATTGTCTTGTATCACACCTAACTTTTATTCAATTTAAAGGATTTCGTGGATTTTCAGAGGAGGTGTCATTTGCTGAGTATGTTTTACAAAAAGGACTTGTTTTAAAGACAGTGATTATTGCTGATATTTCCGTGGACTTAAAGGAGAAGTACGACATTCTCAAAAAATATCTGATGTGCCAAGGGCCTCTGGAATGTGTCAACTTAAATTTGACTGAACTGTATGCATAA
Protein sequence

>MS.gene36941.t1

MGKVCVPPSLKRLTIIIDNEVEAYLEMNAPDLEYLYINGITSGEVFSMYNLHNVVEAHLNVFPQPFSSVIPLNNLLGNLSGTKHLVLGRSTTKWLLGEPHDLNFQELRYLLRLELTLYRYNFNSVLNLLQKCPMLQVLIIHNDKEQSSLLGWTPTPCVPNCLVSHLTFIQFKGFRGFSEEVSFAEYVLQKGLVLKTVIIADISVDLKEKYDILKKYLMCQGPLECVNLNLTELYA