AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene09119

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene09119.t1 MTR_5g094390 74.269 171 9 1 1 136 2 172 1.53e-88 256
MS.gene09119.t1 MTR_5g094390 75.000 168 7 1 1 133 2 169 2.92e-86 254
MS.gene09119.t1 MTR_3g056010 64.286 168 25 1 1 133 1 168 7.97e-72 217
MS.gene09119.t1 MTR_3g056025 64.286 168 25 1 1 133 1 168 1.05e-71 217
MS.gene09119.t1 MTR_7g029020 64.881 168 24 1 1 133 1 168 2.01e-71 216
MS.gene09119.t1 MTR_3g099940 61.538 169 29 2 1 133 1 169 9.56e-66 201
MS.gene09119.t1 MTR_0283s0050 57.738 168 33 2 1 133 1 165 6.72e-62 191
MS.gene09119.t1 MTR_5g097530 57.738 168 33 2 1 133 1 165 1.00e-61 191
MS.gene09119.t1 MTR_3g076650 48.810 168 51 1 1 133 1 168 9.97e-47 159
MS.gene09119.t1 MTR_7g114680 46.541 159 50 2 10 133 8 166 1.90e-41 145
MS.gene09119.t1 MTR_1g081330 46.541 159 50 2 10 133 8 166 1.22e-40 144
MS.gene09119.t1 MTR_8g027265 47.742 155 46 1 14 133 26 180 1.57e-40 143
MS.gene09119.t1 MTR_1g103850 45.399 163 54 2 6 133 4 166 2.15e-40 142
MS.gene09119.t1 MTR_7g072860 46.104 154 48 1 15 133 17 170 2.68e-40 142
MS.gene09119.t1 MTR_7g072640 46.104 154 48 1 15 133 17 170 2.68e-40 142
MS.gene09119.t1 MTR_5g075220 44.304 158 53 1 11 133 12 169 4.20e-40 141
MS.gene09119.t1 MTR_3g080960 44.375 160 54 1 9 133 3 162 7.76e-40 140
MS.gene09119.t1 MTR_4g028830 44.805 154 50 1 15 133 13 166 3.38e-39 139
MS.gene09119.t1 MTR_3g095680 42.763 152 52 1 17 133 24 175 8.82e-35 127
MS.gene09119.t1 MTR_3g095680 42.763 152 52 1 17 133 56 207 1.16e-34 126
MS.gene09119.t1 MTR_7g114680 44.681 141 43 2 28 133 12 152 4.14e-33 122
MS.gene09119.t1 MTR_8g093090 38.272 162 65 1 7 133 14 175 6.09e-33 121
MS.gene09119.t1 MTR_8g093090 38.272 162 65 1 7 133 32 193 7.14e-33 121
MS.gene09119.t1 MTR_6g016260 42.857 147 49 1 22 133 2 148 3.69e-31 116
MS.gene09119.t1 MTR_8g093090 54.545 66 29 1 68 133 29 93 1.39e-20 86.7
MS.gene09119.t1 MTR_1g081330 57.143 56 24 0 78 133 26 81 2.22e-18 80.5
MS.gene09119.t1 MTR_5g049560 40.217 92 35 2 59 137 179 263 1.89e-13 65.5
MS.gene09119.t1 MTR_0068s0070 68.571 35 11 0 78 112 85 119 3.92e-11 57.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene09119.t1 AT5G55560 66.463 164 20 1 5 133 10 173 5.64e-71 215
MS.gene09119.t1 AT3G48260 51.923 156 38 3 14 133 10 164 1.83e-44 152
MS.gene09119.t1 AT3G51630 45.679 162 53 1 7 133 6 167 2.66e-42 147
MS.gene09119.t1 AT3G51630 45.679 162 53 1 7 133 6 167 2.66e-42 147
MS.gene09119.t1 AT5G28080 46.541 159 50 2 10 133 9 167 8.59e-42 144
MS.gene09119.t1 AT3G04910 47.799 159 48 2 10 133 8 166 1.32e-41 146
MS.gene09119.t1 AT3G22420 45.570 158 51 1 11 133 9 166 3.86e-41 144
MS.gene09119.t1 AT3G22420 45.570 158 51 1 11 133 9 166 3.90e-41 144
MS.gene09119.t1 AT3G22420 45.570 158 51 1 11 133 9 166 5.87e-41 144
MS.gene09119.t1 AT3G22420 45.570 158 51 1 11 133 9 166 6.86e-41 144
MS.gene09119.t1 AT3G22420 45.570 158 51 1 11 133 80 237 7.23e-41 144
MS.gene09119.t1 AT3G22420 45.570 158 51 1 11 133 80 237 7.51e-41 144
MS.gene09119.t1 AT3G18750 46.711 152 46 1 17 133 19 170 2.26e-39 138
MS.gene09119.t1 AT3G18750 46.711 152 46 1 17 133 19 170 2.26e-39 138
MS.gene09119.t1 AT3G18750 46.711 152 46 1 17 133 19 170 4.58e-39 138
MS.gene09119.t1 AT3G18750 46.711 152 46 1 17 133 19 170 4.58e-39 138
MS.gene09119.t1 AT3G18750 46.711 152 46 1 17 133 19 170 4.58e-39 138
MS.gene09119.t1 AT1G49160 45.395 152 48 1 17 133 19 170 1.41e-38 137
MS.gene09119.t1 AT5G41990 45.098 153 49 1 16 133 19 171 2.55e-38 136
MS.gene09119.t1 AT5G58350 42.484 153 53 1 16 133 9 161 4.08e-37 133
MS.gene09119.t1 AT1G64630 43.791 153 51 1 16 133 6 158 2.40e-36 130
MS.gene09119.t1 AT3G18750 45.775 142 42 1 27 133 11 152 4.73e-35 127
MS.gene09119.t1 AT1G49160 44.531 128 36 1 41 133 25 152 4.66e-31 116
MS.gene09119.t1 AT1G49160 44.531 128 36 1 41 133 90 217 8.63e-31 115
MS.gene09119.t1 AT1G49160 44.531 128 36 1 41 133 90 217 9.31e-31 115
MS.gene09119.t1 AT3G04910 43.939 132 39 2 37 133 12 143 1.32e-30 115
MS.gene09119.t1 AT5G28080 38.636 132 63 4 10 133 9 130 1.17e-24 97.8
MS.gene09119.t1 AT3G48260 67.857 56 18 0 78 133 14 69 4.51e-23 93.2
MS.gene09119.t1 AT5G28080 61.818 55 21 0 79 133 27 81 2.38e-20 85.9
MS.gene09119.t1 AT5G28080 61.818 55 21 0 79 133 27 81 2.38e-20 85.9
MS.gene09119.t1 AT5G28080 61.818 55 21 0 79 133 27 81 2.38e-20 85.9
MS.gene09119.t1 AT5G28080 61.818 55 21 0 79 133 27 81 2.38e-20 85.9
MS.gene09119.t1 AT5G28080 61.818 55 21 0 79 133 27 81 2.38e-20 85.9
MS.gene09119.t1 AT1G49160 65.116 43 15 0 91 133 1 43 5.46e-15 70.9
MS.gene09119.t1 AT1G49160 65.116 43 15 0 91 133 1 43 5.46e-15 70.9
MS.gene09119.t1 AT1G49160 65.116 43 15 0 91 133 1 43 5.46e-15 70.9
MS.gene09119.t1 AT3G04910 65.000 40 14 0 94 133 1 40 1.03e-13 67.0

Find 32 sgRNAs with CRISPR-Local

Find 38 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTACCTCAATTCCTTCTTCT+TGG 0.192393 4.1:+40817397 None:intergenic
TGCAGTAATGTGTTTGTTAA+TGG 0.230278 4.1:-40817063 MS.gene09119:CDS
AGAGGCTTTATTCTGAAGTT+AGG 0.342057 4.1:-40817323 MS.gene09119:intron
GTGTTTGTTAATGGGAATAT+TGG 0.351412 4.1:-40817054 MS.gene09119:CDS
GCAGTAATGTGTTTGTTAAT+GGG 0.358405 4.1:-40817062 MS.gene09119:CDS
CTATGAAGGCATTGAAGAAA+TGG 0.389560 4.1:-40817158 MS.gene09119:CDS
AGCACCACATACTAATAGTT+CGG 0.404380 4.1:+40817446 None:intergenic
CAAAGACTCCGAGGCATTTG+TGG 0.410838 4.1:-40817502 MS.gene09119:CDS
CATGGAACCAAGTGAAGTTA+AGG 0.417769 4.1:-40817374 MS.gene09119:CDS
CTTCTTCTTGGTCGAATTCA+CGG 0.424561 4.1:+40817409 None:intergenic
GCACCACATACTAATAGTTC+GGG 0.452075 4.1:+40817447 None:intergenic
GGAGTCTTTGTCGGATGATC+CGG 0.458630 4.1:+40817515 None:intergenic
ACTGATCCAACTGGTAGTTA+TGG 0.478422 4.1:-40817477 MS.gene09119:CDS
GTAGGAATTTGAGAGAGTAT+AGG 0.488855 4.1:-40817200 MS.gene09119:intron
TGTTAATGGGAATATTGGCC+AGG 0.497002 4.1:-40817049 MS.gene09119:intron
AGAAGTTCCTTAACTTCACT+TGG 0.505019 4.1:+40817367 None:intergenic
AAATGCCTCGGAGTCTTTGT+CGG 0.523588 4.1:+40817506 None:intergenic
TAAAGCCTCTCTATCATAGC+AGG 0.530301 4.1:+40817336 None:intergenic
AAGAAGGAATTGAGGTAGCA+TGG 0.534488 4.1:-40817392 MS.gene09119:CDS
ACATAGACATGTTTCTATGA+AGG 0.539017 4.1:-40817172 MS.gene09119:CDS
ATCAGTTTCCACAAATGCCT+CGG 0.540566 4.1:+40817494 None:intergenic
CGTGAATTCGACCAAGAAGA+AGG 0.542829 4.1:-40817408 MS.gene09119:CDS
TATCTACCATAACTACCAGT+TGG 0.567118 4.1:+40817471 None:intergenic
TTTGTGGAAACTGATCCAAC+TGG 0.590773 4.1:-40817486 MS.gene09119:CDS
CGACCAAGAAGAAGGAATTG+AGG 0.593167 4.1:-40817400 MS.gene09119:CDS
TATCCCGAACTATTAGTATG+TGG 0.610295 4.1:-40817450 MS.gene09119:CDS
ATGAACCTGCTATGATAGAG+AGG 0.634842 4.1:-40817341 MS.gene09119:CDS
AGGCATTGAAGAAATGGTCA+AGG 0.636906 4.1:-40817152 MS.gene09119:CDS
AGATCTCTATGAATGATGCA+AGG 0.646829 4.1:+40817090 None:intergenic
GATGATCCGGAGTTAACACT+CGG 0.689249 4.1:+40817528 None:intergenic
TAGATGCCGAGTGTTAACTC+CGG 0.690535 4.1:-40817534 MS.gene09119:CDS
ATCATCCGACAAAGACTCCG+AGG 0.705588 4.1:-40817511 MS.gene09119:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AATTGGAAAAGTAAATTACC+TGG + chr4.1:40817446-40817465 None:intergenic 25.0%
GACTCAAAGAAAAACAGAAT+TGG + chr4.1:40817463-40817482 None:intergenic 30.0%
! ACATAGACATGTTTCTATGA+AGG - chr4.1:40817302-40817321 MS.gene09119:intron 30.0%
! GCAGTAATGTGTTTGTTAAT+GGG - chr4.1:40817412-40817431 MS.gene09119:CDS 30.0%
! GTGTTTGTTAATGGGAATAT+TGG - chr4.1:40817420-40817439 MS.gene09119:CDS 30.0%
! TGCAGTAATGTGTTTGTTAA+TGG - chr4.1:40817411-40817430 MS.gene09119:CDS 30.0%
AGAAGTTCCTTAACTTCACT+TGG + chr4.1:40817110-40817129 None:intergenic 35.0%
AGATCTCTATGAATGATGCA+AGG + chr4.1:40817387-40817406 None:intergenic 35.0%
AGCACCACATACTAATAGTT+CGG + chr4.1:40817031-40817050 None:intergenic 35.0%
TATCCCGAACTATTAGTATG+TGG - chr4.1:40817024-40817043 MS.gene09119:intron 35.0%
TATCTACCATAACTACCAGT+TGG + chr4.1:40817006-40817025 None:intergenic 35.0%
! GTAGGAATTTGAGAGAGTAT+AGG - chr4.1:40817274-40817293 MS.gene09119:intron 35.0%
!! AGAGGCTTTATTCTGAAGTT+AGG - chr4.1:40817151-40817170 MS.gene09119:CDS 35.0%
!! CTATGAAGGCATTGAAGAAA+TGG - chr4.1:40817316-40817335 MS.gene09119:intron 35.0%
AAGAAGGAATTGAGGTAGCA+TGG - chr4.1:40817082-40817101 MS.gene09119:CDS 40.0%
ACTGATCCAACTGGTAGTTA+TGG - chr4.1:40816997-40817016 MS.gene09119:intron 40.0%
ATCAGTTTCCACAAATGCCT+CGG + chr4.1:40816983-40817002 None:intergenic 40.0%
ATGAACCTGCTATGATAGAG+AGG - chr4.1:40817133-40817152 MS.gene09119:CDS 40.0%
CATGGAACCAAGTGAAGTTA+AGG - chr4.1:40817100-40817119 MS.gene09119:CDS 40.0%
CTACCTCAATTCCTTCTTCT+TGG + chr4.1:40817080-40817099 None:intergenic 40.0%
CTTCTTCTTGGTCGAATTCA+CGG + chr4.1:40817068-40817087 None:intergenic 40.0%
GCACCACATACTAATAGTTC+GGG + chr4.1:40817030-40817049 None:intergenic 40.0%
TAAAGCCTCTCTATCATAGC+AGG + chr4.1:40817141-40817160 None:intergenic 40.0%
TCGCTGAGGTTTATACATGT+AGG - chr4.1:40817256-40817275 MS.gene09119:intron 40.0%
TGTTAATGGGAATATTGGCC+AGG - chr4.1:40817425-40817444 MS.gene09119:CDS 40.0%
TTTGTGGAAACTGATCCAAC+TGG - chr4.1:40816988-40817007 MS.gene09119:intron 40.0%
! ATGGTCAAGGCAGATTTTGA+AGG - chr4.1:40817335-40817354 MS.gene09119:CDS 40.0%
! TGGTCAAGGCAGATTTTGAA+GGG - chr4.1:40817336-40817355 MS.gene09119:CDS 40.0%
!! AGGCATTGAAGAAATGGTCA+AGG - chr4.1:40817322-40817341 MS.gene09119:intron 40.0%
AAATGCCTCGGAGTCTTTGT+CGG + chr4.1:40816971-40816990 None:intergenic 45.0%
CGACCAAGAAGAAGGAATTG+AGG - chr4.1:40817074-40817093 MS.gene09119:CDS 45.0%
CGTGAATTCGACCAAGAAGA+AGG - chr4.1:40817066-40817085 MS.gene09119:CDS 45.0%
GATGATCCGGAGTTAACACT+CGG + chr4.1:40816949-40816968 None:intergenic 45.0%
!! GGTCAAGGCAGATTTTGAAG+GGG - chr4.1:40817337-40817356 MS.gene09119:CDS 45.0%
ATCATCCGACAAAGACTCCG+AGG - chr4.1:40816963-40816982 MS.gene09119:intron 50.0%
CACGCTTGATTTCATCGCTG+AGG - chr4.1:40817242-40817261 MS.gene09119:intron 50.0%
GGAGTCTTTGTCGGATGATC+CGG + chr4.1:40816962-40816981 None:intergenic 50.0%
! CAAAGACTCCGAGGCATTTG+TGG - chr4.1:40816972-40816991 MS.gene09119:intron 50.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 40816943 40817553 40816943 ID=MS.gene09119
chr4.1 mRNA 40816943 40817553 40816943 ID=MS.gene09119.t1;Parent=MS.gene09119
chr4.1 exon 40817324 40817553 40817324 ID=MS.gene09119.t1.exon1;Parent=MS.gene09119.t1
chr4.1 CDS 40817324 40817553 40817324 ID=cds.MS.gene09119.t1;Parent=MS.gene09119.t1
chr4.1 exon 40817050 40817218 40817050 ID=MS.gene09119.t1.exon2;Parent=MS.gene09119.t1
chr4.1 CDS 40817050 40817218 40817050 ID=cds.MS.gene09119.t1;Parent=MS.gene09119.t1
chr4.1 exon 40816943 40816957 40816943 ID=MS.gene09119.t1.exon3;Parent=MS.gene09119.t1
chr4.1 CDS 40816943 40816957 40816943 ID=cds.MS.gene09119.t1;Parent=MS.gene09119.t1
Gene Sequence

>MS.gene09119

ATGCCGAGTGTTAACTCCGGATCATCCGACAAAGACTCCGAGGCATTTGTGGAAACTGATCCAACTGGTAGTTATGGTAGATATCCCGAACTATTAGTATGTGGTGCTGTGAAGAAAGTGTACCGTGAATTCGACCAAGAAGAAGGAATTGAGGTAGCATGGAACCAAGTGAAGTTAAGGAACTTCTGTGATGAACCTGCTATGATAGAGAGGCTTTATTCTGAAGTTAGGTTATTGAGAAGCTTGACAAACAAAAACATCATTGAACTTTATAGTGTTTAGAGTGATGATCGAAACAACACGCTTGATTTCATCGCTGAGGTTTATACATGTAGGAATTTGAGAGAGTATAGGAAGAAACATAGACATGTTTCTATGAAGGCATTGAAGAAATGGTCAAGGCAGATTTTGAAGGGGTTGAAATATTTGCACACTCATGAGCCTTGCATCATTCATAGAGATCTGAATTGCAGTAATGTGTTTGTTAATGGGAATATTGGCCAGGTAATTTACTTTTCCAATTCTGTTTTTCTTTGAGTCATATTTTGCTTGATTGATAAGTTGAAAATTGATATGTTATTTTAAACTCTTTATAGTTTTTGTTTCTGTGA
Protein sequence

>MS.gene09119.t1

MPSVNSGSSDKDSEAFVETDPTGSYGRYPELLVCGAVKKVYREFDQEEGIEVAWNQVKLRNFCDEPAMIERLYSEVRNLREYRKKHRHVSMKALKKWSRQILKGLKYLHTHEPCIIHRDLNCSNVFVNGNIGQFLFL