AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene80783

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene80783.t1 MTR_4g021760 87.615 218 26 1 1 217 1 218 3.06e-138 389
MS.gene80783.t1 MTR_4g021845 80.184 217 43 0 1 217 1 217 2.86e-130 366
MS.gene80783.t1 MTR_4g021855 75.576 217 53 0 1 217 1 217 7.57e-121 345
MS.gene80783.t1 MTR_4g021790 73.272 217 58 0 1 217 1 217 2.10e-114 328
MS.gene80783.t1 MTR_5g055260 58.065 217 64 4 1 217 1 190 2.11e-81 243
MS.gene80783.t1 MTR_4g023980 76.642 137 32 0 55 191 35 171 4.91e-75 224
MS.gene80783.t1 MTR_1g032570 43.644 236 102 3 13 217 14 249 4.62e-63 206
MS.gene80783.t1 MTR_6g045327 47.534 223 109 4 1 217 1 221 2.32e-57 186
MS.gene80783.t1 MTR_3g086100 39.056 233 114 2 13 217 16 248 3.53e-54 182
MS.gene80783.t1 MTR_8g079940 38.528 231 116 2 13 217 28 258 5.56e-54 181
MS.gene80783.t1 MTR_4g121020 40.260 231 112 3 13 217 34 264 7.85e-53 180
MS.gene80783.t1 MTR_4g121020 40.260 231 112 3 13 217 34 264 8.53e-53 180
MS.gene80783.t1 MTR_2g034960 40.611 229 112 2 13 217 32 260 9.88e-53 179
MS.gene80783.t1 MTR_8g105600 41.518 224 111 2 14 217 13 236 1.57e-50 172
MS.gene80783.t1 MTR_8g093040 44.144 222 103 6 1 217 1 206 1.24e-47 158
MS.gene80783.t1 MTR_1g013170 38.197 233 116 3 13 217 8 240 1.31e-45 158
MS.gene80783.t1 MTR_4g131600 36.842 228 121 4 13 217 23 250 3.58e-45 158
MS.gene80783.t1 MTR_3g106220 37.553 237 116 3 13 217 11 247 6.10e-44 155
MS.gene80783.t1 MTR_7g117705 36.052 233 121 4 13 217 8 240 8.92e-44 152
MS.gene80783.t1 MTR_1g013180 36.910 233 119 4 13 217 159 391 6.33e-42 150
MS.gene80783.t1 MTR_3g102590 39.130 207 99 4 13 217 11 192 4.75e-41 138
MS.gene80783.t1 MTR_1g032570 40.556 180 77 2 68 217 1 180 8.92e-41 146
MS.gene80783.t1 MTR_3g102590 39.130 207 99 4 13 217 11 192 1.15e-40 139
MS.gene80783.t1 MTR_6g016850 40.828 169 97 2 4 169 3 171 6.57e-40 135
MS.gene80783.t1 MTR_4g131570 33.906 233 126 4 13 217 20 252 4.11e-39 142
MS.gene80783.t1 MTR_4g131580 33.478 230 128 4 13 217 20 249 7.09e-38 138
MS.gene80783.t1 MTR_2g450070 33.471 242 124 3 13 217 21 262 1.16e-37 138
MS.gene80783.t1 MTR_3g102600 34.884 215 102 3 4 217 4 181 1.16e-37 129
MS.gene80783.t1 MTR_2g450070 33.471 242 124 3 13 217 21 262 1.39e-37 138
MS.gene80783.t1 MTR_3g102600 34.884 215 102 3 4 217 4 181 2.35e-37 130
MS.gene80783.t1 MTR_3g086100 38.418 177 82 3 68 217 1 177 1.40e-35 131
MS.gene80783.t1 MTR_0450s0040 31.019 216 132 3 14 217 8 218 1.49e-30 115
MS.gene80783.t1 MTR_3g102600 33.537 164 74 1 54 217 4 132 6.78e-30 108
MS.gene80783.t1 MTR_3g102600 33.537 164 74 1 54 217 4 132 1.10e-29 108
MS.gene80783.t1 MTR_7g026400 33.514 185 92 3 54 217 32 206 5.34e-29 114
MS.gene80783.t1 MTR_4g121020 38.710 155 70 2 88 217 6 160 1.05e-27 110
MS.gene80783.t1 MTR_1g013160 33.108 148 72 2 71 191 1 148 3.63e-18 78.6
MS.gene80783.t1 MTR_5g041350 52.941 51 23 1 168 217 15 65 1.01e-11 63.5
MS.gene80783.t1 MTR_8g024260 28.455 123 84 2 13 131 35 157 4.62e-11 62.0
MS.gene80783.t1 MTR_6g032990 52.941 51 23 1 168 217 42 92 5.57e-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.gene80783.t1 AT2G01760 38.430 242 110 5 13 217 10 249 1.41e-51 171
MS.gene80783.t1 AT1G67710 40.171 234 111 4 13 217 10 243 1.00e-50 172
MS.gene80783.t1 AT3G16857 37.450 251 111 5 13 217 36 286 6.07e-46 161
MS.gene80783.t1 AT3G16857 37.450 251 111 5 13 217 36 286 9.51e-46 160
MS.gene80783.t1 AT2G01760 34.444 270 110 6 13 217 10 277 1.22e-45 156
MS.gene80783.t1 AT4G31920 38.532 218 120 4 13 217 16 232 3.70e-42 149
MS.gene80783.t1 AT2G25180 35.808 229 123 3 13 217 16 244 5.62e-41 147
MS.gene80783.t1 AT5G58080 37.118 229 118 5 13 217 17 243 2.51e-36 134
MS.gene80783.t1 AT3G16857 35.814 215 92 5 49 217 2 216 3.10e-35 131
MS.gene80783.t1 AT2G01760 36.022 186 81 4 68 217 1 184 2.19e-34 125
MS.gene80783.t1 AT1G67710 39.326 178 80 3 68 217 1 178 8.55e-32 120
MS.gene80783.t1 AT5G49240 29.289 239 136 3 9 217 37 272 4.20e-30 113
MS.gene80783.t1 AT1G49190 28.755 233 135 5 16 217 36 268 3.23e-25 102
MS.gene80783.t1 AT1G67710 37.975 158 70 3 88 217 12 169 8.08e-24 98.6
MS.gene80783.t1 AT3G62670 28.444 225 134 6 16 217 45 265 1.07e-23 98.2
MS.gene80783.t1 AT5G07210 27.132 258 132 8 14 217 16 271 7.18e-21 90.5
MS.gene80783.t1 AT5G07210 26.316 266 132 9 14 217 16 279 2.52e-18 83.2
MS.gene80783.t1 AT1G68210 24.812 266 143 6 8 217 7 271 1.84e-15 75.1
MS.gene80783.t1 AT1G49190 31.933 119 80 1 16 133 36 154 4.02e-15 73.9
MS.gene80783.t1 AT2G27070 24.138 261 139 9 14 217 16 274 8.70e-15 72.8
MS.gene80783.t1 AT5G60100 30.894 123 79 3 14 131 64 185 6.05e-12 64.7
MS.gene80783.t1 AT5G60100 30.894 123 79 3 14 131 64 185 8.56e-12 63.9
MS.gene80783.t1 AT5G60100 30.894 123 79 3 14 131 64 185 8.56e-12 63.9
MS.gene80783.t1 AT5G60100 30.894 123 79 3 14 131 64 185 8.56e-12 63.9
MS.gene80783.t1 AT5G60100 30.894 123 79 3 14 131 64 185 9.87e-12 63.9
MS.gene80783.t1 AT5G60100 30.894 123 79 3 14 131 64 185 9.87e-12 63.9
MS.gene80783.t1 AT5G60100 30.894 123 79 3 14 131 64 185 9.87e-12 63.9
MS.gene80783.t1 AT5G44190 49.057 53 27 0 165 217 144 196 2.04e-11 62.8
MS.gene80783.t1 AT5G44190 49.057 53 27 0 165 217 144 196 2.18e-11 62.8
MS.gene80783.t1 AT5G24470 27.778 126 81 3 13 131 49 171 2.62e-11 62.8
MS.gene80783.t1 AT3G04030 52.941 51 23 1 168 217 45 95 3.32e-11 62.4
MS.gene80783.t1 AT3G04030 52.941 51 23 1 168 217 45 95 3.72e-11 62.0

Find 39 sgRNAs with CRISPR-Local

Find 56 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACATGTTGCCAGCCATTTAC+AGG 0.283862 4.4:-79907413 None:intergenic
GTGTAATCGATGCAATTATA+AGG 0.312923 4.4:-79908235 MS.gene80783:CDS
ACATCTCCTCGACGAAATTA+AGG 0.321564 4.4:+79908256 None:intergenic
TGAGTTGTAGGGTAACATTT+TGG 0.373812 4.4:+79907995 None:intergenic
CGAATATTGGACCAAGCCTT+TGG 0.374007 4.4:-79907806 MS.gene80783:CDS
AATGTGGGGCTTGCGAATAT+TGG 0.387677 4.4:-79907819 MS.gene80783:CDS
ATCAGAAGCCATGCTACATT+TGG 0.418312 4.4:+79908104 None:intergenic
CAAAGAAGGCCCGTTTGTCT+TGG 0.418636 4.4:-79907636 MS.gene80783:CDS
GTTTCAAGAAAATAGAAAAC+GGG 0.418887 4.4:-79907695 MS.gene80783:CDS
CTTTCTTTCCAACATGTTGA+AGG 0.419409 4.4:+79908080 None:intergenic
TGGCAACATGTTATAAGAAA+AGG 0.422808 4.4:-79907760 MS.gene80783:CDS
TGATGGTTTGTCGGTGAAAA+GGG 0.427097 4.4:+79908326 None:intergenic
ATATGAAATTGTTGGAAGCT+TGG 0.446291 4.4:-79907719 MS.gene80783:CDS
AAAAGAAACACTTGCAAAGA+AGG 0.446990 4.4:-79907650 MS.gene80783:CDS
ATGATGGTTTGTCGGTGAAA+AGG 0.455733 4.4:+79908325 None:intergenic
CTTCAACATGTTGGAAAGAA+AGG 0.459586 4.4:-79908079 MS.gene80783:CDS
AATAAATTCTTACTAATGAC+AGG 0.461511 4.4:+79907967 None:intergenic
TTCTCGCGACCAAGACAAAC+GGG 0.470376 4.4:+79907627 None:intergenic
TGTAATCGATGCAATTATAA+GGG 0.476930 4.4:-79908234 MS.gene80783:intron
TTGAGACCTTCTGATAATGA+TGG 0.479264 4.4:+79908309 None:intergenic
TTCTGATAATGATGGTTTGT+CGG 0.493949 4.4:+79908317 None:intergenic
AAGTCGTAAACATCCATGTT+TGG 0.494866 4.4:+79908021 None:intergenic
TGTTTCAAGAAAATAGAAAA+CGG 0.510078 4.4:-79907696 MS.gene80783:CDS
AGGAAAGAATCATACTATCA+AGG 0.510494 4.4:+79907566 None:intergenic
ATTATGAAGTCTATTGAATG+TGG 0.513075 4.4:-79907835 MS.gene80783:CDS
TTCTGATGCCTTCAACATGT+TGG 0.527887 4.4:-79908088 MS.gene80783:CDS
TTATGAAGTCTATTGAATGT+GGG 0.532174 4.4:-79907834 MS.gene80783:CDS
AAAACGAACCTGTAAATGGC+TGG 0.538065 4.4:+79907405 None:intergenic
TTCAGTTACCAAATGTAGCA+TGG 0.538628 4.4:-79908112 MS.gene80783:intron
ATTCTCGCGACCAAGACAAA+CGG 0.543227 4.4:+79907626 None:intergenic
CTACGTGCAGTCAATCAACT+AGG 0.547867 4.4:-79907589 MS.gene80783:CDS
ATCATTATCAGAAGGTCTCA+AGG 0.582734 4.4:-79908307 MS.gene80783:CDS
AGAACTTTCTGCAGAATCAA+CGG 0.593830 4.4:+79907858 None:intergenic
TCTTATAACATGTTGCCACA+TGG 0.594344 4.4:+79907765 None:intergenic
TATGAAGTCTATTGAATGTG+GGG 0.598969 4.4:-79907833 MS.gene80783:CDS
TGATGCTCATATGCCAAACA+TGG 0.604750 4.4:-79908034 MS.gene80783:CDS
CACTCTCCTTAATTTCGTCG+AGG 0.625060 4.4:-79908262 MS.gene80783:CDS
GACAAACCATCATTATCAGA+AGG 0.636966 4.4:-79908315 MS.gene80783:CDS
TTTCAAGAAAATAGAAAACG+GGG 0.722642 4.4:-79907694 MS.gene80783:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AACAAAAAATATGAAATTGT+TGG - chr4.4:79908017-79908036 MS.gene80783:CDS 15.0%
!! AACATAGTAAAAAAGTAATT+AGG + chr4.4:79908201-79908220 None:intergenic 15.0%
!! AATAAATTCTTACTAATGAC+AGG + chr4.4:79907780-79907799 None:intergenic 20.0%
!! ATAGATGAAAACTTTGAATA+AGG + chr4.4:79907553-79907572 None:intergenic 20.0%
!! TGAAAAATAAGAGAAAAACA+TGG + chr4.4:79908255-79908274 None:intergenic 20.0%
!! TGTTTCAAGAAAATAGAAAA+CGG - chr4.4:79908048-79908067 MS.gene80783:CDS 20.0%
!!! AAAAAAGATTCTGAAAATCA+TGG - chr4.4:79908286-79908305 MS.gene80783:CDS 20.0%
!!! AACATGTTCTTTTTTCATAT+CGG + chr4.4:79908318-79908337 None:intergenic 20.0%
!!! ATGATTTTCAGAATCTTTTT+TGG + chr4.4:79908287-79908306 None:intergenic 20.0%
!!! ATGTTTTTCTCTTATTTTTC+AGG - chr4.4:79908254-79908273 MS.gene80783:CDS 20.0%
!!! TGTTTTTCTCTTATTTTTCA+GGG - chr4.4:79908255-79908274 MS.gene80783:CDS 20.0%
!!! TTATTTCTTTTTTGTAGTGA+TGG - chr4.4:79907863-79907882 MS.gene80783:CDS 20.0%
!!! TTCAAAGTTTTCATCTATTT+TGG - chr4.4:79907555-79907574 MS.gene80783:intron 20.0%
! ATTATGAAGTCTATTGAATG+TGG - chr4.4:79907909-79907928 MS.gene80783:intron 25.0%
! GTTTCAAGAAAATAGAAAAC+GGG - chr4.4:79908049-79908068 MS.gene80783:CDS 25.0%
! TGTAATCGATGCAATTATAA+GGG - chr4.4:79907510-79907529 MS.gene80783:intron 25.0%
! TTATGAAGTCTATTGAATGT+GGG - chr4.4:79907910-79907929 MS.gene80783:intron 25.0%
! TTTCAAGAAAATAGAAAACG+GGG - chr4.4:79908050-79908069 MS.gene80783:CDS 25.0%
!!! ACATGTTCTTTTTTCATATC+GGG + chr4.4:79908317-79908336 None:intergenic 25.0%
!!! GTTTTTCTCTTATTTTTCAG+GGG - chr4.4:79908256-79908275 MS.gene80783:CDS 25.0%
AAAAGAAACACTTGCAAAGA+AGG - chr4.4:79908094-79908113 MS.gene80783:CDS 30.0%
AGGAAAGAATCATACTATCA+AGG + chr4.4:79908181-79908200 None:intergenic 30.0%
ATATGAAATTGTTGGAAGCT+TGG - chr4.4:79908025-79908044 MS.gene80783:CDS 30.0%
GTGTAATCGATGCAATTATA+AGG - chr4.4:79907509-79907528 MS.gene80783:intron 30.0%
TATGAAGTCTATTGAATGTG+GGG - chr4.4:79907911-79907930 MS.gene80783:intron 30.0%
TGGCAACATGTTATAAGAAA+AGG - chr4.4:79907984-79908003 MS.gene80783:CDS 30.0%
! CTTTGCAAGTGTTTCTTTTA+AGG + chr4.4:79908093-79908112 None:intergenic 30.0%
! TTCTGATAATGATGGTTTGT+CGG + chr4.4:79907430-79907449 None:intergenic 30.0%
!! TTGAACTGTTTTTCAACCAA+AGG + chr4.4:79907957-79907976 None:intergenic 30.0%
AAAAACAGTTCAAGACCATG+TGG - chr4.4:79907964-79907983 MS.gene80783:intron 35.0%
AAGTCGTAAACATCCATGTT+TGG + chr4.4:79907726-79907745 None:intergenic 35.0%
AGAACTTTCTGCAGAATCAA+CGG + chr4.4:79907889-79907908 None:intergenic 35.0%
ATCATTATCAGAAGGTCTCA+AGG - chr4.4:79907437-79907456 MS.gene80783:CDS 35.0%
CTTCAACATGTTGGAAAGAA+AGG - chr4.4:79907665-79907684 MS.gene80783:CDS 35.0%
CTTTCTTTCCAACATGTTGA+AGG + chr4.4:79907667-79907686 None:intergenic 35.0%
GACAAACCATCATTATCAGA+AGG - chr4.4:79907429-79907448 MS.gene80783:CDS 35.0%
TCTTATAACATGTTGCCACA+TGG + chr4.4:79907982-79908001 None:intergenic 35.0%
TTCAGTTACCAAATGTAGCA+TGG - chr4.4:79907632-79907651 MS.gene80783:CDS 35.0%
! TGAGTTGTAGGGTAACATTT+TGG + chr4.4:79907752-79907771 None:intergenic 35.0%
! TTGAGACCTTCTGATAATGA+TGG + chr4.4:79907438-79907457 None:intergenic 35.0%
!!! GACAGGAATTTTGAGTTGTA+GGG + chr4.4:79907763-79907782 None:intergenic 35.0%
!!! TGACAGGAATTTTGAGTTGT+AGG + chr4.4:79907764-79907783 None:intergenic 35.0%
ACATCTCCTCGACGAAATTA+AGG + chr4.4:79907491-79907510 None:intergenic 40.0%
ATCAGAAGCCATGCTACATT+TGG + chr4.4:79907643-79907662 None:intergenic 40.0%
TGATGCTCATATGCCAAACA+TGG - chr4.4:79907710-79907729 MS.gene80783:CDS 40.0%
TTCTGATGCCTTCAACATGT+TGG - chr4.4:79907656-79907675 MS.gene80783:CDS 40.0%
! ATGATGGTTTGTCGGTGAAA+AGG + chr4.4:79907422-79907441 None:intergenic 40.0%
! TGATGGTTTGTCGGTGAAAA+GGG + chr4.4:79907421-79907440 None:intergenic 40.0%
!! CTGTTTTTCAACCAAAGGCT+TGG + chr4.4:79907952-79907971 None:intergenic 40.0%
AATGTGGGGCTTGCGAATAT+TGG - chr4.4:79907925-79907944 MS.gene80783:intron 45.0%
ATTCTCGCGACCAAGACAAA+CGG + chr4.4:79908121-79908140 None:intergenic 45.0%
CACTCTCCTTAATTTCGTCG+AGG - chr4.4:79907482-79907501 MS.gene80783:intron 45.0%
CGAATATTGGACCAAGCCTT+TGG - chr4.4:79907938-79907957 MS.gene80783:intron 45.0%
CTACGTGCAGTCAATCAACT+AGG - chr4.4:79908155-79908174 MS.gene80783:intron 45.0%
CAAAGAAGGCCCGTTTGTCT+TGG - chr4.4:79908108-79908127 MS.gene80783:CDS 50.0%
TTCTCGCGACCAAGACAAAC+GGG + chr4.4:79908120-79908139 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr4.4 gene 79907414 79908352 79907414 ID=MS.gene80783
chr4.4 mRNA 79907414 79908352 79907414 ID=MS.gene80783.t1;Parent=MS.gene80783
chr4.4 exon 79908235 79908352 79908235 ID=MS.gene80783.t1.exon1;Parent=MS.gene80783.t1
chr4.4 CDS 79908235 79908352 79908235 ID=cds.MS.gene80783.t1;Parent=MS.gene80783.t1
chr4.4 exon 79907980 79908129 79907980 ID=MS.gene80783.t1.exon2;Parent=MS.gene80783.t1
chr4.4 CDS 79907980 79908129 79907980 ID=cds.MS.gene80783.t1;Parent=MS.gene80783.t1
chr4.4 exon 79907581 79907886 79907581 ID=MS.gene80783.t1.exon3;Parent=MS.gene80783.t1
chr4.4 CDS 79907581 79907886 79907581 ID=cds.MS.gene80783.t1;Parent=MS.gene80783.t1
chr4.4 exon 79907414 79907490 79907414 ID=MS.gene80783.t1.exon4;Parent=MS.gene80783.t1
chr4.4 CDS 79907414 79907490 79907414 ID=cds.MS.gene80783.t1;Parent=MS.gene80783.t1
Gene Sequence

>MS.gene80783

ATGGCCCTTTTCACCGACAAACCATCATTATCAGAAGGTCTCAAGGTTCTTGCAATTGATCATGACATCACTCTCCTTAATTTCGTCGAGGAGATGTGTAATCGATGCAATTATAAGGGTTAGTAACTGAATCACACCTTATTCAAAGTTTTCATCTATTTTGGTAAAAATTCTGACTTTTATATGTTTTCATGTTTGCTTATTCTGATATTGTTTATTTCAGTTACCAAATGTAGCATGGCTTCTGATGCCTTCAACATGTTGGAAAGAAAGGACTGTTTCGATGTAATGTTGATTGATGCTCATATGCCAAACATGGATGTTTACGACTTTGTCCAAAATGTTACCCTACAACTCAAAATTCCTGTCATTAGTAAGAATTTATTCAACTTTGCACAATTCAAATGATTCATTCATATTATGTACTTAATAAGTGTGAACTTACATTATTATTTCTTTTTTGTAGTGATGGCCGTTGATTCTGCAGAAAGTTCTATTATGAAGTCTATTGAATGTGGGGCTTGCGAATATTGGACCAAGCCTTTGGTTGAAAAACAGTTCAAGACCATGTGGCAACATGTTATAAGAAAAGGTTTGACTCAAAACAAAAAATATGAAATTGTTGGAAGCTTGGTGTTTCAAGAAAATAGAAAACGGGGTAGAGAAGATGCTAATGCCTTAAAAGAAACACTTGCAAAGAAGGCCCGTTTGTCTTGGTCGCGAGAATTGCATCAGCAGTTTCTACGTGCAGTCAATCAACTAGGCCTTGATAGTATGATTCTTTCCTAATTACTTTTTTACTATGTTTTATTGCATTCTTCAACAGTTGAACTTATGTCCATGTTTTTCTCTTATTTTTCAGGGGCAACGCCAAAAAAGATTCTGAAAATCATGGATGTTCCCGATATGAAAAAAGAACATGTTGCCAGCCATTTACAG
Protein sequence

>MS.gene80783.t1

MALFTDKPSLSEGLKVLAIDHDITLLNFVEEMCNRCNYKVTKCSMASDAFNMLERKDCFDVMLIDAHMPNMDVYDFVQNVTLQLKIPVIMMAVDSAESSIMKSIECGACEYWTKPLVEKQFKTMWQHVIRKGLTQNKKYEIVGSLVFQENRKRGREDANALKETLAKKARLSWSRELHQQFLRAVNQLGLDRATPKKILKIMDVPDMKKEHVASHLQ