AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene033853

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene033853.t1 MTR_5g094740 61.947 113 43 0 8 120 709 821 3.63e-43 150
MS.gene033853.t1 MTR_1g019580 54.464 112 51 0 8 119 19 130 3.02e-41 133
MS.gene033853.t1 MTR_1g105780 54.464 112 51 0 8 119 162 273 1.44e-40 135
MS.gene033853.t1 MTR_1g105765 54.464 112 51 0 8 119 162 273 1.63e-40 135
MS.gene033853.t1 MTR_3g452180 49.580 119 60 0 2 120 71 189 9.66e-38 126
MS.gene033853.t1 MTR_7g110090 49.580 119 60 0 2 120 155 273 1.93e-37 127
MS.gene033853.t1 MTR_4g032560 48.718 117 60 0 3 119 185 301 2.15e-36 125
MS.gene033853.t1 MTR_4g032580 48.718 117 60 0 3 119 185 301 2.27e-36 125
MS.gene033853.t1 MTR_4g062370 61.290 93 36 0 3 95 160 252 1.70e-32 120
MS.gene033853.t1 MTR_1g069260 44.531 128 59 1 3 118 161 288 1.61e-31 113
MS.gene033853.t1 MTR_8g042540 54.651 86 39 0 35 120 3 88 2.28e-30 104
MS.gene033853.t1 MTR_8g042540 54.762 84 38 0 37 120 17 100 9.37e-30 103
MS.gene033853.t1 MTR_1g087870 41.441 111 65 0 9 119 115 225 5.28e-29 105
MS.gene033853.t1 MTR_1g047540 45.299 117 64 0 2 118 140 256 6.96e-29 108
MS.gene033853.t1 MTR_4g121040 45.133 113 62 0 2 114 59 171 1.34e-27 100
MS.gene033853.t1 MTR_0152s0060 47.191 89 47 0 24 112 228 316 5.31e-23 92.0
MS.gene033853.t1 MTR_3g048970 40.404 99 59 0 20 118 178 276 1.55e-21 86.7
MS.gene033853.t1 MTR_1g084880 40.404 99 59 0 20 118 178 276 1.67e-21 86.7
MS.gene033853.t1 MTR_3g070250 36.792 106 67 0 13 118 176 281 5.85e-20 82.4
MS.gene033853.t1 MTR_3g085990 41.379 116 49 3 4 119 140 236 3.59e-19 79.7
MS.gene033853.t1 MTR_4g057880 43.662 71 40 0 48 118 2 72 9.04e-18 72.0
MS.gene033853.t1 MTR_2g016390 40.230 87 52 0 11 97 602 688 5.02e-17 75.9
MS.gene033853.t1 MTR_4g081330 50.000 62 31 0 38 99 1085 1146 8.94e-15 69.3
MS.gene033853.t1 MTR_2g100360 37.234 94 58 1 4 97 163 255 1.33e-14 68.2
MS.gene033853.t1 MTR_6g016445 50.000 60 30 0 42 101 13 72 2.24e-13 61.6
MS.gene033853.t1 MTR_1g037600 39.326 89 53 1 13 100 71 159 4.57e-13 63.9
MS.gene033853.t1 MTR_4g117740 49.123 57 29 0 6 62 141 197 4.70e-13 62.8
MS.gene033853.t1 MTR_2g072800 43.284 67 38 0 39 105 202 268 4.24e-12 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 29 sgRNAs with CRISPR-Local

Find 32 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GACTTTGTTGAGATCGATTC+TGG 0.241191 2.2:-38157612 MS.gene033853:CDS
TTGATGAATGTGGTTGTATA+TGG 0.268575 2.2:-38157433 MS.gene033853:CDS
ATGCAGGATTTGGCTCATAT+TGG 0.281266 2.2:-38157503 MS.gene033853:intron
TGAGATCGATTCTGGATTCT+TGG 0.324173 2.2:-38157604 MS.gene033853:intron
TGCAGGATTTGGCTCATATT+GGG 0.361232 2.2:-38157502 MS.gene033853:intron
GGTCAAGGCTAGAAGGTTAA+AGG 0.364042 2.2:-38157342 MS.gene033853:CDS
TTCTCATTGACACCGATATA+TGG 0.377396 2.2:+38157293 None:intergenic
GACGGTGACAGTGTCGTTAT+CGG 0.398058 2.2:-38157320 MS.gene033853:CDS
TGCACAAATGGCACAGGAAA+AGG 0.399613 2.2:+38157675 None:intergenic
GTTATCGGTGCTCCATATAT+CGG 0.401878 2.2:-38157305 MS.gene033853:CDS
CCTCATGCTCACTTTAAGAT+TGG 0.409855 2.2:-38157383 MS.gene033853:CDS
AGATTGGCGGTGGCTGGAAC+AGG 0.416190 2.2:-38157367 MS.gene033853:CDS
ACTTTAAGATTGGCGGTGGC+TGG 0.418939 2.2:-38157373 MS.gene033853:CDS
TGAAACTGAGAATCTGAGTT+TGG 0.418987 2.2:-38157456 MS.gene033853:CDS
TTAAATTCATTATGCACAAA+TGG 0.431684 2.2:+38157663 None:intergenic
CATGAGGGCGTGTAACAAAC+TGG 0.441451 2.2:+38157399 None:intergenic
ACAGGATGGTCAAGGCTAGA+AGG 0.443921 2.2:-38157349 MS.gene033853:CDS
CATGCTCACTTTAAGATTGG+CGG 0.482279 2.2:-38157380 MS.gene033853:CDS
CTGAGTTTGGTTGATGAATG+TGG 0.483514 2.2:-38157443 MS.gene033853:CDS
TGATGAATGTGGTTGTATAT+GGG 0.484155 2.2:-38157432 MS.gene033853:CDS
GCTCACTTTAAGATTGGCGG+TGG 0.568885 2.2:-38157377 MS.gene033853:CDS
CCAATCTTAAAGTGAGCATG+AGG 0.578221 2.2:+38157383 None:intergenic
TCATTATGCACAAATGGCAC+AGG 0.601819 2.2:+38157669 None:intergenic
TGGCGGTGGCTGGAACAGGA+TGG 0.649155 2.2:-38157363 MS.gene033853:CDS
TGGCTGGAACAGGATGGTCA+AGG 0.676417 2.2:-38157357 MS.gene033853:CDS
AGGGCGTGTAACAAACTGGA+GGG 0.676724 2.2:+38157403 None:intergenic
CAATCTTAAAGTGAGCATGA+GGG 0.680650 2.2:+38157384 None:intergenic
AAGGCTAGAAGGTTAAAGGA+CGG 0.693112 2.2:-38157338 MS.gene033853:CDS
GAGGGCGTGTAACAAACTGG+AGG 0.699235 2.2:+38157402 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTAAATTCATTATGCACAAA+TGG + chr2.2:38157295-38157314 None:intergenic 20.0%
!!! ATATGATGTTTTAATTATGC+AGG - chr2.2:38157436-38157455 MS.gene033853:CDS 20.0%
!!! TGTTAAAAAAGATATTGACT+TGG - chr2.2:38157385-38157404 MS.gene033853:CDS 20.0%
!!! TGTTTTAATTATGCAGGATT+TGG - chr2.2:38157442-38157461 MS.gene033853:CDS 25.0%
TGATGAATGTGGTTGTATAT+GGG - chr2.2:38157523-38157542 MS.gene033853:intron 30.0%
TTGATGAATGTGGTTGTATA+TGG - chr2.2:38157522-38157541 MS.gene033853:intron 30.0%
CAATCTTAAAGTGAGCATGA+GGG + chr2.2:38157574-38157593 None:intergenic 35.0%
TGAAACTGAGAATCTGAGTT+TGG - chr2.2:38157499-38157518 MS.gene033853:CDS 35.0%
TTCTCATTGACACCGATATA+TGG + chr2.2:38157665-38157684 None:intergenic 35.0%
AAGGCTAGAAGGTTAAAGGA+CGG - chr2.2:38157617-38157636 MS.gene033853:CDS 40.0%
CCAATCTTAAAGTGAGCATG+AGG + chr2.2:38157575-38157594 None:intergenic 40.0%
TCATTATGCACAAATGGCAC+AGG + chr2.2:38157289-38157308 None:intergenic 40.0%
! ATGCAGGATTTGGCTCATAT+TGG - chr2.2:38157452-38157471 MS.gene033853:CDS 40.0%
! GACTTTGTTGAGATCGATTC+TGG - chr2.2:38157343-38157362 MS.gene033853:CDS 40.0%
! GTTATCGGTGCTCCATATAT+CGG - chr2.2:38157650-38157669 MS.gene033853:CDS 40.0%
! TGAGATCGATTCTGGATTCT+TGG - chr2.2:38157351-38157370 MS.gene033853:CDS 40.0%
! TGCAGGATTTGGCTCATATT+GGG - chr2.2:38157453-38157472 MS.gene033853:CDS 40.0%
!! CATGCTCACTTTAAGATTGG+CGG - chr2.2:38157575-38157594 MS.gene033853:intron 40.0%
!! CCTCATGCTCACTTTAAGAT+TGG - chr2.2:38157572-38157591 MS.gene033853:intron 40.0%
!! CTGAGTTTGGTTGATGAATG+TGG - chr2.2:38157512-38157531 MS.gene033853:intron 40.0%
GGTCAAGGCTAGAAGGTTAA+AGG - chr2.2:38157613-38157632 MS.gene033853:CDS 45.0%
TGCACAAATGGCACAGGAAA+AGG + chr2.2:38157283-38157302 None:intergenic 45.0%
ACAGGATGGTCAAGGCTAGA+AGG - chr2.2:38157606-38157625 MS.gene033853:CDS 50.0%
AGGGCGTGTAACAAACTGGA+GGG + chr2.2:38157555-38157574 None:intergenic 50.0%
! CATGAGGGCGTGTAACAAAC+TGG + chr2.2:38157559-38157578 None:intergenic 50.0%
! GACGGTGACAGTGTCGTTAT+CGG - chr2.2:38157635-38157654 MS.gene033853:CDS 50.0%
!! ACTTTAAGATTGGCGGTGGC+TGG - chr2.2:38157582-38157601 MS.gene033853:intron 50.0%
!! GCTCACTTTAAGATTGGCGG+TGG - chr2.2:38157578-38157597 MS.gene033853:intron 50.0%
TGGCTGGAACAGGATGGTCA+AGG - chr2.2:38157598-38157617 MS.gene033853:intron 55.0%
! GAGGGCGTGTAACAAACTGG+AGG + chr2.2:38157556-38157575 None:intergenic 55.0%
AGATTGGCGGTGGCTGGAAC+AGG - chr2.2:38157588-38157607 MS.gene033853:intron 60.0%
TGGCGGTGGCTGGAACAGGA+TGG - chr2.2:38157592-38157611 MS.gene033853:intron 65.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 38157265 38157712 38157265 ID=MS.gene033853
chr2.2 mRNA 38157265 38157712 38157265 ID=MS.gene033853.t1;Parent=MS.gene033853
chr2.2 exon 38157605 38157712 38157605 ID=MS.gene033853.t1.exon1;Parent=MS.gene033853.t1
chr2.2 CDS 38157605 38157712 38157605 ID=cds.MS.gene033853.t1;Parent=MS.gene033853.t1
chr2.2 exon 38157265 38157519 38157265 ID=MS.gene033853.t1.exon2;Parent=MS.gene033853.t1
chr2.2 CDS 38157265 38157519 38157265 ID=cds.MS.gene033853.t1;Parent=MS.gene033853.t1
Gene Sequence

>MS.gene033853

ATGCATTTGTTCAATCCTTTTCCTGTGCCATTTGTGCATAATGAATTTAACTTTCAACTGACATATGAGAAAAAGCTTGACTTTGTTGAGATCGATTCTGGATTCTTGGTATGTTTTATGTGTTAAAAAAGATATTGACTTGGTGTTGCAATTGATTCGACTTCAACTAATATATGATGTTTTAATTATGCAGGATTTGGCTCATATTGGGTTCTGTCAGCTTGCTTTGAACACTGAAACTGAGAATCTGAGTTTGGTTGATGAATGTGGTTGTATATGGGATTGCACCCTCCAGTTTGTTACACGCCCTCATGCTCACTTTAAGATTGGCGGTGGCTGGAACAGGATGGTCAAGGCTAGAAGGTTAAAGGACGGTGACAGTGTCGTTATCGGTGCTCCATATATCGGTGTCAATGAGAAGCTCTTTTTTTTTGTTGTTCGTTATTAG
Protein sequence

>MS.gene033853.t1

MHLFNPFPVPFVHNEFNFQLTYEKKLDFVEIDSGFLDLAHIGFCQLALNTETENLSLVDECGCIWDCTLQFVTRPHAHFKIGGGWNRMVKARRLKDGDSVVIGAPYIGVNEKLFFFVVRY