AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene022120

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene022120.t1 MTR_5g094740 61.062 113 44 0 8 120 709 821 1.64e-42 148
MS.gene022120.t1 MTR_1g019580 53.571 112 52 0 8 119 19 130 1.56e-40 131
MS.gene022120.t1 MTR_1g105780 53.571 112 52 0 8 119 162 273 7.89e-40 134
MS.gene022120.t1 MTR_1g105765 53.571 112 52 0 8 119 162 273 8.51e-40 134
MS.gene022120.t1 MTR_3g452180 48.739 119 61 0 2 120 71 189 4.57e-37 124
MS.gene022120.t1 MTR_7g110090 48.739 119 61 0 2 120 155 273 9.92e-37 126
MS.gene022120.t1 MTR_4g032560 48.718 117 60 0 3 119 185 301 2.29e-36 125
MS.gene022120.t1 MTR_4g032580 48.718 117 60 0 3 119 185 301 2.47e-36 125
MS.gene022120.t1 MTR_4g062370 61.290 93 36 0 3 95 160 252 2.49e-32 119
MS.gene022120.t1 MTR_1g069260 44.531 128 59 1 3 118 161 288 1.95e-31 112
MS.gene022120.t1 MTR_8g042540 54.651 86 39 0 35 120 3 88 6.66e-30 103
MS.gene022120.t1 MTR_8g042540 54.762 84 38 0 37 120 17 100 2.59e-29 102
MS.gene022120.t1 MTR_1g047540 46.491 114 61 0 2 115 140 253 8.87e-29 108
MS.gene022120.t1 MTR_1g087870 41.509 106 62 0 9 114 115 220 2.23e-28 104
MS.gene022120.t1 MTR_4g121040 45.133 113 62 0 2 114 59 171 1.40e-27 100
MS.gene022120.t1 MTR_0152s0060 47.191 89 47 0 24 112 228 316 5.15e-23 92.0
MS.gene022120.t1 MTR_3g048970 39.583 96 58 0 20 115 178 273 6.44e-21 85.1
MS.gene022120.t1 MTR_1g084880 39.583 96 58 0 20 115 178 273 6.44e-21 85.1
MS.gene022120.t1 MTR_3g085990 41.379 116 49 3 4 119 140 236 9.61e-20 81.3
MS.gene022120.t1 MTR_3g070250 36.893 103 65 0 13 115 176 278 1.65e-19 81.3
MS.gene022120.t1 MTR_4g057880 44.118 68 38 0 48 115 2 69 2.80e-17 70.9
MS.gene022120.t1 MTR_2g016390 38.710 93 57 0 11 103 602 694 5.42e-17 75.9
MS.gene022120.t1 MTR_4g081330 50.000 62 31 0 38 99 1085 1146 8.27e-15 69.7
MS.gene022120.t1 MTR_2g100360 37.234 94 58 1 4 97 163 255 1.23e-14 68.2
MS.gene022120.t1 MTR_6g016445 50.000 60 30 0 42 101 13 72 2.50e-13 61.6
MS.gene022120.t1 MTR_4g117740 49.123 57 29 0 6 62 141 197 4.55e-13 62.8
MS.gene022120.t1 MTR_1g037600 39.326 89 53 1 13 100 71 159 5.43e-13 63.5
MS.gene022120.t1 MTR_2g072800 43.284 67 38 0 39 105 202 268 4.83e-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 7.4:+80375219 MS.gene022120:CDS
TTGATGAATGTGGTTGTATA+TGG 0.268575 7.4:+80375398 MS.gene022120:CDS
ATGCAGGATTTGGCTCATAT+TGG 0.281266 7.4:+80375328 MS.gene022120:intron
TGAGATCGATTCTGGATTCT+TGG 0.324173 7.4:+80375227 MS.gene022120:CDS
TGCAGGATTTGGCTCATATT+GGG 0.361232 7.4:+80375329 MS.gene022120:intron
GGTCAAGGCTAGAAGGTTAA+AGG 0.364042 7.4:+80375489 MS.gene022120:CDS
TTCTCATTGACACCGATATA+TGG 0.377396 7.4:-80375538 None:intergenic
GACGGTGACAGTGTCGTTAT+CGG 0.398058 7.4:+80375511 MS.gene022120:CDS
TGCACAAATGGCACAGGAAA+AGG 0.399613 7.4:-80375156 None:intergenic
GTTATCGGTGCTCCATATAT+CGG 0.401878 7.4:+80375526 MS.gene022120:CDS
CCTCATGCTCACTTTAAGAT+TGG 0.409855 7.4:+80375448 MS.gene022120:CDS
AGATTGGCGGTGGCTGGAAC+AGG 0.416190 7.4:+80375464 MS.gene022120:CDS
ACTTTAAGATTGGCGGTGGC+TGG 0.418939 7.4:+80375458 MS.gene022120:CDS
TGAAACTGAGAATCTGAGTT+TGG 0.418987 7.4:+80375375 MS.gene022120:CDS
TTAAATTCATTATGCACAAA+TGG 0.431684 7.4:-80375168 None:intergenic
CATGAGGGCGTGTAACAAAC+TGG 0.441451 7.4:-80375432 None:intergenic
ACAGGATGGTCAAGGCTAGA+AGG 0.443921 7.4:+80375482 MS.gene022120:CDS
CATGCTCACTTTAAGATTGG+CGG 0.482279 7.4:+80375451 MS.gene022120:CDS
CTGAGTTTGGTTGATGAATG+TGG 0.483514 7.4:+80375388 MS.gene022120:CDS
TGATGAATGTGGTTGTATAT+GGG 0.484155 7.4:+80375399 MS.gene022120:CDS
GCTCACTTTAAGATTGGCGG+TGG 0.568885 7.4:+80375454 MS.gene022120:CDS
CCAATCTTAAAGTGAGCATG+AGG 0.578221 7.4:-80375448 None:intergenic
TCATTATGCACAAATGGCAC+AGG 0.601819 7.4:-80375162 None:intergenic
TGGCGGTGGCTGGAACAGGA+TGG 0.649155 7.4:+80375468 MS.gene022120:CDS
TGGCTGGAACAGGATGGTCA+AGG 0.676417 7.4:+80375474 MS.gene022120:CDS
AGGGCGTGTAACAAACTGGA+GGG 0.676724 7.4:-80375428 None:intergenic
CAATCTTAAAGTGAGCATGA+GGG 0.680650 7.4:-80375447 None:intergenic
AAGGCTAGAAGGTTAAAGGA+CGG 0.693112 7.4:+80375493 MS.gene022120:CDS
GAGGGCGTGTAACAAACTGG+AGG 0.699235 7.4:-80375429 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTAAATTCATTATGCACAAA+TGG - chr7.4:80375171-80375190 None:intergenic 20.0%
!!! ATATGATGTTTTAATTATGC+AGG + chr7.4:80375312-80375331 MS.gene022120:intron 20.0%
!!! TGTTAAAAAAGATATTGACT+TGG + chr7.4:80375261-80375280 MS.gene022120:intron 20.0%
!!! TGTTTTAATTATGCAGGATT+TGG + chr7.4:80375318-80375337 MS.gene022120:intron 25.0%
TGATGAATGTGGTTGTATAT+GGG + chr7.4:80375399-80375418 MS.gene022120:CDS 30.0%
TTGATGAATGTGGTTGTATA+TGG + chr7.4:80375398-80375417 MS.gene022120:CDS 30.0%
CAATCTTAAAGTGAGCATGA+GGG - chr7.4:80375450-80375469 None:intergenic 35.0%
TGAAACTGAGAATCTGAGTT+TGG + chr7.4:80375375-80375394 MS.gene022120:CDS 35.0%
TTCTCATTGACACCGATATA+TGG - chr7.4:80375541-80375560 None:intergenic 35.0%
AAGGCTAGAAGGTTAAAGGA+CGG + chr7.4:80375493-80375512 MS.gene022120:CDS 40.0%
CCAATCTTAAAGTGAGCATG+AGG - chr7.4:80375451-80375470 None:intergenic 40.0%
TCATTATGCACAAATGGCAC+AGG - chr7.4:80375165-80375184 None:intergenic 40.0%
! ATGCAGGATTTGGCTCATAT+TGG + chr7.4:80375328-80375347 MS.gene022120:intron 40.0%
! GACTTTGTTGAGATCGATTC+TGG + chr7.4:80375219-80375238 MS.gene022120:CDS 40.0%
! GTTATCGGTGCTCCATATAT+CGG + chr7.4:80375526-80375545 MS.gene022120:CDS 40.0%
! TGAGATCGATTCTGGATTCT+TGG + chr7.4:80375227-80375246 MS.gene022120:CDS 40.0%
! TGCAGGATTTGGCTCATATT+GGG + chr7.4:80375329-80375348 MS.gene022120:intron 40.0%
!! CATGCTCACTTTAAGATTGG+CGG + chr7.4:80375451-80375470 MS.gene022120:CDS 40.0%
!! CCTCATGCTCACTTTAAGAT+TGG + chr7.4:80375448-80375467 MS.gene022120:CDS 40.0%
!! CTGAGTTTGGTTGATGAATG+TGG + chr7.4:80375388-80375407 MS.gene022120:CDS 40.0%
GGTCAAGGCTAGAAGGTTAA+AGG + chr7.4:80375489-80375508 MS.gene022120:CDS 45.0%
TGCACAAATGGCACAGGAAA+AGG - chr7.4:80375159-80375178 None:intergenic 45.0%
ACAGGATGGTCAAGGCTAGA+AGG + chr7.4:80375482-80375501 MS.gene022120:CDS 50.0%
AGGGCGTGTAACAAACTGGA+GGG - chr7.4:80375431-80375450 None:intergenic 50.0%
! CATGAGGGCGTGTAACAAAC+TGG - chr7.4:80375435-80375454 None:intergenic 50.0%
! GACGGTGACAGTGTCGTTAT+CGG + chr7.4:80375511-80375530 MS.gene022120:CDS 50.0%
!! ACTTTAAGATTGGCGGTGGC+TGG + chr7.4:80375458-80375477 MS.gene022120:CDS 50.0%
!! GCTCACTTTAAGATTGGCGG+TGG + chr7.4:80375454-80375473 MS.gene022120:CDS 50.0%
TGGCTGGAACAGGATGGTCA+AGG + chr7.4:80375474-80375493 MS.gene022120:CDS 55.0%
! GAGGGCGTGTAACAAACTGG+AGG - chr7.4:80375432-80375451 None:intergenic 55.0%
AGATTGGCGGTGGCTGGAAC+AGG + chr7.4:80375464-80375483 MS.gene022120:CDS 60.0%
TGGCGGTGGCTGGAACAGGA+TGG + chr7.4:80375468-80375487 MS.gene022120:CDS 65.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 80375141 80375588 80375141 ID=MS.gene022120
chr7.4 mRNA 80375141 80375588 80375141 ID=MS.gene022120.t1;Parent=MS.gene022120
chr7.4 exon 80375141 80375248 80375141 ID=MS.gene022120.t1.exon1;Parent=MS.gene022120.t1
chr7.4 CDS 80375141 80375248 80375141 ID=cds.MS.gene022120.t1;Parent=MS.gene022120.t1
chr7.4 exon 80375334 80375588 80375334 ID=MS.gene022120.t1.exon2;Parent=MS.gene022120.t1
chr7.4 CDS 80375334 80375588 80375334 ID=cds.MS.gene022120.t1;Parent=MS.gene022120.t1
Gene Sequence

>MS.gene022120

ATGCATTTGTTCAATCCTTTTCCTGTGCCATTTGTGCATAATGAATTTAACTTTCAACTGACATATGAGAAAAAGCTTGACTTTGTTGAGATCGATTCTGGATTCTTGGTATGTTTTATGTGTTAAAAAAGATATTGACTTGGTGTTGCAATTGATTCGACTTCAACTAATATATGATGTTTTAATTATGCAGGATTTGGCTCATATTGGGTTCTGTCAGCTTGCTTTGAACACTGAAACTGAGAATCTGAGTTTGGTTGATGAATGTGGTTGTATATGGGATTGCACCCTCCAGTTTGTTACACGCCCTCATGCTCACTTTAAGATTGGCGGTGGCTGGAACAGGATGGTCAAGGCTAGAAGGTTAAAGGACGGTGACAGTGTCGTTATCGGTGCTCCATATATCGGTGTCAATGAGAAGCTCTTTTTTTTTTTTGTTCGTTATTAG
Protein sequence

>MS.gene022120.t1

MHLFNPFPVPFVHNEFNFQLTYEKKLDFVEIDSGFLDLAHIGFCQLALNTETENLSLVDECGCIWDCTLQFVTRPHAHFKIGGGWNRMVKARRLKDGDSVVIGAPYIGVNEKLFFFFVRY