AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene062255


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene062255.t1 MTR_1g076270 97.753 178 4 0 1 178 1 178 3.58e-128 357
MS.gene062255.t1 MTR_1g093350 97.753 178 4 0 1 178 1 178 3.58e-128 357
MS.gene062255.t1 MTR_1g040675 74.176 182 33 3 11 178 1 182 7.69e-93 268
MS.gene062255.t1 MTR_1g070830 59.701 201 58 5 1 178 1 201 4.78e-80 236
MS.gene062255.t1 MTR_1g040675 70.988 162 33 3 11 158 1 162 1.83e-76 226
MS.gene062255.t1 MTR_6g488150 42.174 230 73 5 9 178 13 242 7.59e-53 169
MS.gene062255.t1 MTR_1g093240 45.622 217 69 6 11 178 8 224 9.76e-52 166
MS.gene062255.t1 MTR_1g093240 45.622 217 69 6 11 178 8 224 1.63e-51 165
MS.gene062255.t1 MTR_1g080860 42.291 227 72 6 11 178 15 241 1.86e-49 160
MS.gene062255.t1 MTR_1g080860 42.291 227 72 6 11 178 15 241 2.09e-49 160
MS.gene062255.t1 MTR_7g096090 49.153 177 63 5 28 178 63 238 3.51e-48 157
MS.gene062255.t1 MTR_5g030710 45.304 181 68 4 29 178 143 323 1.36e-47 158
MS.gene062255.t1 MTR_1g070520 41.892 222 64 6 16 178 18 233 1.99e-47 155
MS.gene062255.t1 MTR_5g067350 47.126 174 62 5 30 178 167 335 1.57e-45 153
MS.gene062255.t1 MTR_8g067530 47.159 176 64 5 29 178 172 344 1.95e-45 153
MS.gene062255.t1 MTR_2g101500 53.020 149 43 4 57 178 166 314 2.35e-45 152
MS.gene062255.t1 MTR_8g103030 47.802 182 66 6 26 178 100 281 3.82e-44 148
MS.gene062255.t1 MTR_4g011880 46.746 169 81 4 11 178 6 166 3.52e-41 137
MS.gene062255.t1 MTR_1g093240 42.132 197 65 6 11 158 8 204 5.39e-39 132
MS.gene062255.t1 MTR_2g102490 44.767 172 74 6 13 170 16 180 5.44e-32 114
MS.gene062255.t1 MTR_6g488150 37.576 165 57 4 9 127 13 177 4.02e-28 103
MS.gene062255.t1 MTR_1g069495 33.333 177 57 4 62 178 81 256 3.34e-26 100
MS.gene062255.t1 MTR_8g014520 36.420 162 57 5 55 174 103 260 4.14e-25 98.2
MS.gene062255.t1 MTR_8g014520 36.420 162 57 5 55 174 103 260 4.70e-25 98.2
MS.gene062255.t1 MTR_4g124300 37.984 129 77 2 48 175 58 184 4.99e-25 95.9
MS.gene062255.t1 MTR_2g100780 33.721 172 65 4 50 174 85 254 1.64e-24 96.7
MS.gene062255.t1 MTR_2g100780 33.721 172 65 4 50 174 85 254 2.25e-24 96.3
MS.gene062255.t1 MTR_5g067350 44.037 109 44 3 30 125 167 271 2.01e-21 88.6
MS.gene062255.t1 MTR_1g085750 43.820 89 49 1 84 171 82 170 1.91e-19 81.3
MS.gene062255.t1 MTR_7g110790 40.426 94 55 1 79 171 62 155 1.25e-18 78.6
MS.gene062255.t1 MTR_3g106850 31.538 130 69 3 64 178 89 213 1.72e-18 79.3
MS.gene062255.t1 MTR_4g115075 30.579 121 63 3 64 171 93 205 2.84e-16 73.6
MS.gene062255.t1 MTR_1g085750 42.105 76 43 1 84 158 82 157 2.09e-13 64.7
MS.gene062255.t1 MTR_1g109510 37.607 117 62 4 64 171 54 168 2.94e-13 64.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene062255.t1 AT5G43700 62.295 183 62 3 1 178 1 181 7.06e-77 228
MS.gene062255.t1 AT1G04240 60.773 181 58 4 11 178 5 185 1.13e-76 227
MS.gene062255.t1 AT1G04240 60.773 181 58 4 11 178 105 285 8.12e-76 229
MS.gene062255.t1 AT3G23030 60.112 178 53 4 5 175 1 167 2.54e-69 208
MS.gene062255.t1 AT3G23030 59.777 179 54 4 4 175 87 254 8.12e-69 210
MS.gene062255.t1 AT4G14560 60.479 167 59 3 9 175 5 164 3.72e-65 197
MS.gene062255.t1 AT3G04730 45.089 224 66 6 11 178 2 224 1.20e-53 171
MS.gene062255.t1 AT4G14550 46.759 216 67 8 11 178 1 216 8.74e-53 168
MS.gene062255.t1 AT4G14550 46.759 216 67 8 11 178 1 216 1.29e-52 167
MS.gene062255.t1 AT1G04250 43.721 215 72 5 10 178 6 217 1.67e-51 165
MS.gene062255.t1 AT3G23050 44.889 225 67 8 11 178 6 230 1.83e-51 165
MS.gene062255.t1 AT4G29080 42.248 258 61 8 9 178 36 293 1.38e-50 165
MS.gene062255.t1 AT3G15540 45.989 187 76 5 11 177 6 187 4.93e-45 147
MS.gene062255.t1 AT1G15580 49.419 172 70 6 9 177 6 163 3.07e-44 144
MS.gene062255.t1 AT1G52830 45.556 180 83 5 11 177 6 183 1.29e-42 141
MS.gene062255.t1 AT2G22670 47.468 158 56 4 48 178 150 307 2.50e-42 144
MS.gene062255.t1 AT2G22670 47.468 158 56 4 48 178 150 307 2.50e-42 144
MS.gene062255.t1 AT2G22670 47.468 158 56 4 48 178 150 307 2.70e-42 144
MS.gene062255.t1 AT2G22670 47.468 158 56 4 48 178 150 307 2.70e-42 144
MS.gene062255.t1 AT2G22670 47.468 158 56 4 48 178 167 324 3.00e-42 144
MS.gene062255.t1 AT5G65670 50.345 145 46 4 60 178 180 324 2.53e-41 142
MS.gene062255.t1 AT5G65670 50.345 145 46 4 60 178 180 324 3.04e-41 141
MS.gene062255.t1 AT4G14550 43.590 195 62 8 11 157 1 195 4.55e-40 134
MS.gene062255.t1 AT3G23050 41.463 205 63 8 11 158 6 210 2.31e-38 130
MS.gene062255.t1 AT4G28640 39.881 168 63 5 48 177 73 240 1.88e-30 111
MS.gene062255.t1 AT4G28640 39.881 168 63 5 48 177 73 240 2.29e-30 111
MS.gene062255.t1 AT2G33310 38.587 184 64 6 44 178 47 230 2.65e-30 111
MS.gene062255.t1 AT2G33310 38.587 184 64 6 44 178 47 230 2.65e-30 111
MS.gene062255.t1 AT4G28640 39.881 168 63 5 48 177 73 240 1.31e-29 110
MS.gene062255.t1 AT2G33310 38.378 185 64 6 44 178 47 231 1.97e-29 108
MS.gene062255.t1 AT1G04550 35.754 179 74 4 40 178 46 223 5.56e-29 107
MS.gene062255.t1 AT3G16500 31.336 217 93 6 14 174 36 252 3.89e-27 103
MS.gene062255.t1 AT3G16500 31.140 228 97 7 7 174 25 252 4.12e-27 103
MS.gene062255.t1 AT5G25890 35.057 174 87 6 14 175 5 164 3.74e-26 98.6
MS.gene062255.t1 AT4G14550 42.384 151 51 7 11 125 1 151 7.33e-26 98.2
MS.gene062255.t1 AT1G51950 33.333 213 88 7 14 174 40 250 1.61e-25 99.4
MS.gene062255.t1 AT3G17600 38.710 124 62 3 56 171 37 154 2.66e-25 95.9
MS.gene062255.t1 AT3G23050 40.123 162 52 7 11 127 6 167 8.81e-25 94.7
MS.gene062255.t1 AT1G04100 38.788 165 50 4 65 178 95 259 2.96e-24 95.9
MS.gene062255.t1 AT2G46990 44.186 86 48 0 86 171 85 170 2.24e-20 83.6
MS.gene062255.t1 AT3G62100 45.349 86 47 0 86 171 83 168 2.50e-20 83.6
MS.gene062255.t1 AT1G80390 40.171 117 60 3 12 124 15 125 1.75e-18 77.4
MS.gene062255.t1 AT2G46990 45.205 73 40 0 86 158 85 157 2.98e-15 69.7
MS.gene062255.t1 AT3G62100 45.205 73 40 0 86 158 83 155 9.80e-15 68.2
MS.gene062255.t1 AT4G32280 34.884 86 51 2 86 171 118 198 2.97e-13 65.5
MS.gene062255.t1 AT4G32280 34.884 86 51 2 86 171 160 240 8.94e-13 64.7
MS.gene062255.t1 AT2G01200 38.614 101 59 2 76 175 89 187 1.69e-11 60.5
MS.gene062255.t1 AT2G01200 38.614 101 59 2 76 175 89 187 1.69e-11 60.5
MS.gene062255.t1 AT1G15050 37.778 90 53 2 87 175 62 149 6.13e-11 58.2

Find 35 sgRNAs with CRISPR-Local

Find 50 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTACAAGAGGCTGAGGCTTC+TGG 0.222165 1.1:+57132417 MS.gene062255:CDS
TTCTTCCTGTAAGATCTTAT+TGG 0.258525 1.1:-57132390 None:intergenic
AAGATTGATTTGAGGGTCTA+TGG 0.290855 1.1:+57132483 MS.gene062255:CDS
TGCACAACTTCTTAAAGCTT+TGG 0.324497 1.1:+57132512 MS.gene062255:CDS
TCCTTTGAAGTTTCAGTCAA+TGG 0.366569 1.1:-57132195 None:intergenic
TATGTGAAAGTGAGTTTAGA+TGG 0.375233 1.1:+57132444 MS.gene062255:CDS
CCTTAGGAAGATTGATTTGA+GGG 0.380707 1.1:+57132476 MS.gene062255:CDS
ACTTGCAGGGCTAAGATAGT+AGG 0.383062 1.1:+57132360 MS.gene062255:intron
TACAAGAGGCTGAGGCTTCT+GGG 0.384427 1.1:+57132418 MS.gene062255:CDS
GAGTTAAGATTAGGACTTCC+AGG 0.392283 1.1:+57132126 MS.gene062255:CDS
CCATCTTTATCTTCATATGT+AGG 0.415484 1.1:-57132603 None:intergenic
GGCCACCAATAAGATCTTAC+AGG 0.438714 1.1:+57132385 MS.gene062255:CDS
GATGGTGATTGGATGTTAGT+TGG 0.443053 1.1:+57132621 MS.gene062255:CDS
TAGATGGAGCTCCTTACCTT+AGG 0.462831 1.1:+57132460 MS.gene062255:CDS
TTCCTGTAAGATCTTATTGG+TGG 0.463988 1.1:-57132387 None:intergenic
ACTGAAACTTCAAAGGATAG+TGG 0.473190 1.1:+57132201 MS.gene062255:CDS
ATGAAGATAAAGATGGTGAT+TGG 0.480229 1.1:+57132610 MS.gene062255:CDS
AAGGCTACTGAGTTAAGATT+AGG 0.488179 1.1:+57132117 MS.gene062255:CDS
ACCTTAGGAAGATTGATTTG+AGG 0.502641 1.1:+57132475 MS.gene062255:CDS
AAATCAATCTTCCTAAGGTA+AGG 0.513222 1.1:-57132471 None:intergenic
CCCTCAAATCAATCTTCCTA+AGG 0.515293 1.1:-57132476 None:intergenic
CTTGCAGGGCTAAGATAGTA+GGG 0.554533 1.1:+57132361 MS.gene062255:intron
GAACAGTTTACAAGAGGCTG+AGG 0.558668 1.1:+57132410 MS.gene062255:CDS
TGTTAGTTGGAGATGTTCCA+TGG 0.566837 1.1:+57132634 MS.gene062255:CDS
CCTACATATGAAGATAAAGA+TGG 0.572828 1.1:+57132603 MS.gene062255:CDS
TGAGAATGATCTCAACATGA+AGG 0.586923 1.1:+57132098 MS.gene062255:CDS
ACCATTGACTGAAACTTCAA+AGG 0.590661 1.1:+57132194 MS.gene062255:CDS
ATTGATTTGAGGGTCTATGG+TGG 0.593128 1.1:+57132486 MS.gene062255:CDS
CAGGAAGAACAGTTTACAAG+AGG 0.599653 1.1:+57132404 MS.gene062255:CDS
AGTTAAGATTAGGACTTCCA+GGG 0.616003 1.1:+57132127 MS.gene062255:CDS
GTTAGTTGGAGATGTTCCAT+GGG 0.617620 1.1:+57132635 MS.gene062255:CDS
AGCATGTTCAAGTTAACCAT+AGG 0.640019 1.1:+57132537 MS.gene062255:CDS
AAAAGACTAAGAATCATGAA+AGG 0.648151 1.1:+57132789 MS.gene062255:CDS
ATGAAAGGAACAGAAGCTAG+AGG 0.651214 1.1:+57132804 MS.gene062255:CDS
GCAGGGCTAAGATAGTAGGG+TGG 0.770265 1.1:+57132364 MS.gene062255:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTTATAAGGTAGAAAGAAAA+AGG - chr1.1:57132298-57132317 None:intergenic 20.0%
!!! TTTTCTTTCTACCTTATAAA+GGG + chr1.1:57132298-57132317 MS.gene062255:intron 20.0%
!!! TTTTTCTTTCTACCTTATAA+AGG + chr1.1:57132297-57132316 MS.gene062255:intron 20.0%
! AAAAGACTAAGAATCATGAA+AGG + chr1.1:57132789-57132808 MS.gene062255:CDS 25.0%
! GCATATATAGAGAGAAAAAA+AGG - chr1.1:57132668-57132687 None:intergenic 25.0%
! TCTGAAAAAGAAGGTTATAA+AGG + chr1.1:57132567-57132586 MS.gene062255:CDS 25.0%
!! ATCTTTTGAACTTACTTTGA+AGG - chr1.1:57132255-57132274 None:intergenic 25.0%
!!! AGAATATTTTTTTGACTTGC+AGG + chr1.1:57132346-57132365 MS.gene062255:intron 25.0%
!!! GAATATTTTTTTGACTTGCA+GGG + chr1.1:57132347-57132366 MS.gene062255:intron 25.0%
!!! TTTTTCAGAATAATCACCTA+TGG - chr1.1:57132556-57132575 None:intergenic 25.0%
AAATCAATCTTCCTAAGGTA+AGG - chr1.1:57132474-57132493 None:intergenic 30.0%
ATGAAGATAAAGATGGTGAT+TGG + chr1.1:57132610-57132629 MS.gene062255:CDS 30.0%
CCATCTTTATCTTCATATGT+AGG - chr1.1:57132606-57132625 None:intergenic 30.0%
CCTACATATGAAGATAAAGA+TGG + chr1.1:57132603-57132622 MS.gene062255:CDS 30.0%
TATGTGAAAGTGAGTTTAGA+TGG + chr1.1:57132444-57132463 MS.gene062255:CDS 30.0%
TTCTTCCTGTAAGATCTTAT+TGG - chr1.1:57132393-57132412 None:intergenic 30.0%
! GGTGATTATTCTGAAAAAGA+AGG + chr1.1:57132558-57132577 MS.gene062255:CDS 30.0%
!! TTTTGAACTTACTTTGAAGG+AGG - chr1.1:57132252-57132271 None:intergenic 30.0%
AAAAAAAGGACTTACTCCCA+TGG - chr1.1:57132654-57132673 None:intergenic 35.0%
AAGGCTACTGAGTTAAGATT+AGG + chr1.1:57132117-57132136 MS.gene062255:CDS 35.0%
ACATCATGCAACCCTTTATA+AGG - chr1.1:57132312-57132331 None:intergenic 35.0%
ACTGAAACTTCAAAGGATAG+TGG + chr1.1:57132201-57132220 MS.gene062255:CDS 35.0%
AGTTAAGATTAGGACTTCCA+GGG + chr1.1:57132127-57132146 MS.gene062255:CDS 35.0%
TGAGAATGATCTCAACATGA+AGG + chr1.1:57132098-57132117 MS.gene062255:CDS 35.0%
TGCACAACTTCTTAAAGCTT+TGG + chr1.1:57132512-57132531 MS.gene062255:CDS 35.0%
TTCCTGTAAGATCTTATTGG+TGG - chr1.1:57132390-57132409 None:intergenic 35.0%
! ACCATTGACTGAAACTTCAA+AGG + chr1.1:57132194-57132213 MS.gene062255:CDS 35.0%
! AGCATGTTCAAGTTAACCAT+AGG + chr1.1:57132537-57132556 MS.gene062255:CDS 35.0%
! TTCAGTCAATGGTCTTTTGT+TGG - chr1.1:57132187-57132206 None:intergenic 35.0%
!! AAGATTGATTTGAGGGTCTA+TGG + chr1.1:57132483-57132502 MS.gene062255:CDS 35.0%
!! ACCTTAGGAAGATTGATTTG+AGG + chr1.1:57132475-57132494 MS.gene062255:CDS 35.0%
!! CCTTAGGAAGATTGATTTGA+GGG + chr1.1:57132476-57132495 MS.gene062255:CDS 35.0%
!! TCCTTTGAAGTTTCAGTCAA+TGG - chr1.1:57132198-57132217 None:intergenic 35.0%
ATGAAAGGAACAGAAGCTAG+AGG + chr1.1:57132804-57132823 MS.gene062255:CDS 40.0%
CAGGAAGAACAGTTTACAAG+AGG + chr1.1:57132404-57132423 MS.gene062255:CDS 40.0%
CCCTCAAATCAATCTTCCTA+AGG - chr1.1:57132479-57132498 None:intergenic 40.0%
GAGTTAAGATTAGGACTTCC+AGG + chr1.1:57132126-57132145 MS.gene062255:CDS 40.0%
GATGGTGATTGGATGTTAGT+TGG + chr1.1:57132621-57132640 MS.gene062255:CDS 40.0%
GTTAGTTGGAGATGTTCCAT+GGG + chr1.1:57132635-57132654 MS.gene062255:CDS 40.0%
TGTTAGTTGGAGATGTTCCA+TGG + chr1.1:57132634-57132653 MS.gene062255:CDS 40.0%
! TCTTCATTTTGTTCTGTCCC+TGG - chr1.1:57132147-57132166 None:intergenic 40.0%
!! ATTGATTTGAGGGTCTATGG+TGG + chr1.1:57132486-57132505 MS.gene062255:CDS 40.0%
ACTTGCAGGGCTAAGATAGT+AGG + chr1.1:57132360-57132379 MS.gene062255:intron 45.0%
CTTGCAGGGCTAAGATAGTA+GGG + chr1.1:57132361-57132380 MS.gene062255:intron 45.0%
GAACAGTTTACAAGAGGCTG+AGG + chr1.1:57132410-57132429 MS.gene062255:CDS 45.0%
GGCCACCAATAAGATCTTAC+AGG + chr1.1:57132385-57132404 MS.gene062255:CDS 45.0%
TAGATGGAGCTCCTTACCTT+AGG + chr1.1:57132460-57132479 MS.gene062255:CDS 45.0%
TACAAGAGGCTGAGGCTTCT+GGG + chr1.1:57132418-57132437 MS.gene062255:CDS 50.0%
TTACAAGAGGCTGAGGCTTC+TGG + chr1.1:57132417-57132436 MS.gene062255:CDS 50.0%
GCAGGGCTAAGATAGTAGGG+TGG + chr1.1:57132364-57132383 MS.gene062255:intron 55.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 57132078 57132833 57132078 ID=MS.gene062255
chr1.1 mRNA 57132078 57132833 57132078 ID=MS.gene062255.t1;Parent=MS.gene062255
chr1.1 exon 57132078 57132259 57132078 ID=MS.gene062255.t1.exon1;Parent=MS.gene062255.t1
chr1.1 CDS 57132078 57132259 57132078 ID=cds.MS.gene062255.t1;Parent=MS.gene062255.t1
chr1.1 exon 57132368 57132658 57132368 ID=MS.gene062255.t1.exon2;Parent=MS.gene062255.t1
chr1.1 CDS 57132368 57132658 57132368 ID=cds.MS.gene062255.t1;Parent=MS.gene062255.t1
chr1.1 exon 57132770 57132833 57132770 ID=MS.gene062255.t1.exon3;Parent=MS.gene062255.t1
chr1.1 CDS 57132770 57132833 57132770 ID=cds.MS.gene062255.t1;Parent=MS.gene062255.t1
Gene Sequence

>MS.gene062255

ATGGAAAACAGTGTTGCATATGAGAATGATCTCAACATGAAGGCTACTGAGTTAAGATTAGGACTTCCAGGGACAGAACAAAATGAAGAACAAACAGCAAAAATTTCCAACAAAAGACCATTGACTGAAACTTCAAAGGATAGTGGTTCAAAAACTTCTGATGATGCAGCACCTCCTTCAAAGTAAGTTCAAAAGATTATCAAAACTTTAAAGACTTCCTTTTTCTTTCTACCTTATAAAGGGTTGCATGATGTTGTTTGATTAATAAAGAATATTTTTTTGACTTGCAGGGCTAAGATAGTAGGGTGGCCACCAATAAGATCTTACAGGAAGAACAGTTTACAAGAGGCTGAGGCTTCTGGGATTTATGTGAAAGTGAGTTTAGATGGAGCTCCTTACCTTAGGAAGATTGATTTGAGGGTCTATGGTGGATATGCACAACTTCTTAAAGCTTTGGAAAGCATGTTCAAGTTAACCATAGGTGATTATTCTGAAAAAGAAGGTTATAAAGGATCTGAATATGAACCTACATATGAAGATAAAGATGGTGATTGGATGTTAGTTGGAGATGTTCCATGGGAGTAAGTCCTTTTTTTCTCTCTATATATGCTTTTGAACTAATTTGATAGTTAATTAGCTATAATTAAATTAAATGAAATTAAACTGACATAACTATACTTTATTTTCTGCAGCATGTTTGTAACTTCTTGTAAAAGACTAAGAATCATGAAAGGAACAGAAGCTAGAGGTGTTTGA

Protein sequence

>MS.gene062255.t1

MENSVAYENDLNMKATELRLGLPGTEQNEEQTAKISNKRPLTETSKDSGSKTSDDAAPPSKAKIVGWPPIRSYRKNSLQEAEASGIYVKVSLDGAPYLRKIDLRVYGGYAQLLKALESMFKLTIGDYSEKEGYKGSEYEPTYEDKDGDWMLVGDVPWDMFVTSCKRLRIMKGTEARGV