AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene64841

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene64841.t1 MTR_5g023350 91.441 222 19 0 1 222 65 286 9.01e-147 410
MS.gene64841.t1 MTR_5g023340 90.541 222 21 0 1 222 65 286 4.31e-145 406
MS.gene64841.t1 MTR_5g023390 89.189 222 24 0 1 222 65 286 6.91e-145 405
MS.gene64841.t1 MTR_5g023370 89.189 222 24 0 1 222 65 286 1.98e-144 404
MS.gene64841.t1 MTR_5g023600 90.541 222 21 0 1 222 65 286 6.46e-144 403
MS.gene64841.t1 MTR_5g023520 90.498 221 20 1 1 220 64 284 3.89e-143 401
MS.gene64841.t1 MTR_5g023530 88.789 223 24 1 1 222 65 287 1.91e-142 399
MS.gene64841.t1 MTR_5g023470 87.892 223 26 1 1 222 65 287 5.97e-141 395
MS.gene64841.t1 MTR_5g023550 87.727 220 27 0 1 220 64 283 3.21e-140 394
MS.gene64841.t1 MTR_5g023320 87.783 221 23 2 1 220 65 282 3.82e-136 383
MS.gene64841.t1 MTR_5g023580 82.432 222 35 2 1 218 65 286 5.22e-125 358
MS.gene64841.t1 MTR_5g023460 88.108 185 18 1 36 220 11 191 8.29e-115 326
MS.gene64841.t1 MTR_8g074450 67.257 226 68 2 1 220 64 289 8.45e-103 299
MS.gene64841.t1 MTR_8g074420 65.929 226 71 2 1 220 64 289 3.50e-102 297
MS.gene64841.t1 MTR_8g074510 65.929 226 71 2 1 220 62 287 3.94e-102 297
MS.gene64841.t1 MTR_8g074530 42.291 227 123 4 1 220 79 304 1.12e-46 156
MS.gene64841.t1 MTR_5g023290 35.931 231 134 4 4 220 78 308 2.15e-40 140
MS.gene64841.t1 MTR_5g023650 37.118 229 133 3 2 220 77 304 6.18e-38 134
MS.gene64841.t1 MTR_8g074380 39.367 221 114 5 4 221 80 283 1.67e-37 133
MS.gene64841.t1 MTR_3g116950 36.404 228 131 7 1 219 72 294 7.52e-37 130
MS.gene64841.t1 MTR_4g070530 35.088 228 137 4 1 220 71 295 2.01e-35 127
MS.gene64841.t1 MTR_3g116920 35.652 230 134 7 1 219 70 296 1.02e-34 125
MS.gene64841.t1 MTR_4g070570 31.034 232 145 6 1 219 72 301 3.35e-33 121
MS.gene64841.t1 MTR_4g070590 36.245 229 133 7 1 219 74 299 8.41e-33 120
MS.gene64841.t1 MTR_4g070540 34.821 224 139 4 1 218 71 293 8.58e-30 112
MS.gene64841.t1 MTR_1g037820 30.734 218 133 5 4 220 25 225 6.60e-25 98.2
MS.gene64841.t1 MTR_5g023410 94.595 37 2 0 1 37 64 100 2.53e-17 77.8
MS.gene64841.t1 MTR_5g023540 57.576 66 25 1 100 165 2 64 3.46e-16 70.9
MS.gene64841.t1 MTR_3g115150 25.000 240 150 7 1 222 90 317 6.41e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene64841.t1 AT4G35690 35.398 226 132 6 1 220 66 283 3.70e-38 134
MS.gene64841.t1 AT2G17080 33.333 219 123 6 2 219 65 261 1.50e-31 116
MS.gene64841.t1 AT2G17070 33.945 218 121 6 1 217 64 259 2.22e-31 115
MS.gene64841.t1 AT2G17680 35.622 233 128 8 1 220 68 291 4.31e-31 115
MS.gene64841.t1 AT4G35710 31.441 229 136 6 1 220 66 282 2.25e-26 103
MS.gene64841.t1 AT4G35200 32.407 216 119 6 4 218 64 253 2.99e-26 102
MS.gene64841.t1 AT4G35210 30.734 218 117 7 4 218 64 250 2.34e-24 97.1
MS.gene64841.t1 AT4G35680 31.197 234 139 7 2 220 83 309 1.54e-21 90.9
MS.gene64841.t1 AT1G76210 28.879 232 122 6 2 220 24 225 1.80e-20 86.3
MS.gene64841.t1 AT4G35660 28.936 235 131 5 2 221 75 288 3.68e-19 84.0
MS.gene64841.t1 AT4G35720 30.279 251 137 6 4 220 78 324 1.46e-16 77.4
MS.gene64841.t1 AT1G20520 26.872 227 133 6 2 220 24 225 8.58e-16 73.9
MS.gene64841.t1 AT3G51400 31.034 203 119 7 31 221 82 275 2.77e-15 73.2

Find 37 sgRNAs with CRISPR-Local

Find 40 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAACATCATGACTCTATCTT+AGG 0.153901 5.1:-14156710 None:intergenic
AAACATATGGAAACTAAATT+TGG 0.157953 5.1:-14157099 MS.gene64841:CDS
CATTAGAACCTTCACTTATA+AGG 0.159224 5.1:+14156836 None:intergenic
CATGGAGAATTTCAATGAAT+TGG 0.259249 5.1:-14156884 MS.gene64841:CDS
CCACAAATTTCTCACCTTGA+TGG 0.264918 5.1:+14157328 None:intergenic
GCGATTGAAAGTATAGAAAA+TGG 0.286718 5.1:-14156781 MS.gene64841:CDS
CTTTGTGAAGAATTTATATT+CGG 0.312307 5.1:+14157161 None:intergenic
CCCTTCACTCTTCTATTAGA+AGG 0.319114 5.1:-14157218 MS.gene64841:CDS
ATTAGAACCTTCACTTATAA+GGG 0.348108 5.1:+14156837 None:intergenic
AGAGAATATATTTAGGCGTT+TGG 0.352912 5.1:-14156755 MS.gene64841:CDS
GAAATTTGTGGAAGAGTTGT+TGG 0.365610 5.1:-14157316 MS.gene64841:CDS
GATCACATCTTTAAAACATA+TGG 0.374642 5.1:-14157112 MS.gene64841:CDS
CAAAGTCAAAGGCAACAAAA+TGG 0.408302 5.1:-14156954 MS.gene64841:CDS
ACATGAAAGATTTGAGGCTT+TGG 0.411831 5.1:-14156809 MS.gene64841:CDS
GGATGGTTCAGTGAAAGTTT+TGG 0.423908 5.1:-14157295 MS.gene64841:CDS
GAACTGTAATCACTGCAATA+AGG 0.430581 5.1:+14157046 None:intergenic
CTCTTCTATTAGAAGGAGAA+AGG 0.431202 5.1:-14157211 MS.gene64841:CDS
ATGGTTTAGAGAATATATTT+AGG 0.442461 5.1:-14156762 MS.gene64841:CDS
TGTTGCACATGAAAGATTTG+AGG 0.445316 5.1:-14156815 MS.gene64841:CDS
CCATCAAGGTGAGAAATTTG+TGG 0.460090 5.1:-14157328 MS.gene64841:CDS
CAATATGCCATCAACACAAA+AGG 0.475245 5.1:-14157361 None:intergenic
AACATCATGACTCTATCTTA+GGG 0.475458 5.1:-14156709 None:intergenic
TGACAAAGTTGATGCAAAAG+AGG 0.517663 5.1:-14156924 MS.gene64841:CDS
TCCTTCTAATAGAAGAGTGA+AGG 0.521837 5.1:+14157217 None:intergenic
TTGAGAACCCTTATAAGTGA+AGG 0.541465 5.1:-14156844 MS.gene64841:CDS
TCTTCTATTAGAAGGAGAAA+GGG 0.546804 5.1:-14157210 MS.gene64841:CDS
TTTCAATGAATTGGAATGTG+TGG 0.547727 5.1:-14156875 MS.gene64841:CDS
GGTATCATGTGAAGAGAACA+TGG 0.559553 5.1:-14156902 MS.gene64841:CDS
TGGATATCTGTGGTATCACA+AGG 0.581302 5.1:-14157275 MS.gene64841:CDS
CCTTCTAATAGAAGAGTGAA+GGG 0.584278 5.1:+14157218 None:intergenic
TGGATCTTCATCAAAGTCAA+AGG 0.588491 5.1:-14156965 MS.gene64841:CDS
GACAAAGTTGATGCAAAAGA+GGG 0.591207 5.1:-14156923 MS.gene64841:CDS
AAGGCTATATCTCACCATCA+AGG 0.613728 5.1:-14157342 MS.gene64841:CDS
TTTGTGGAAGAGTTGTTGGA+TGG 0.615570 5.1:-14157312 MS.gene64841:CDS
TTGATCTTGATTCGAAAGTG+AGG 0.621821 5.1:+14157071 None:intergenic
AGTGATTACAGTTCTTAGAG+AGG 0.623623 5.1:-14157037 MS.gene64841:CDS
GGATATCTGTGGTATCACAA+GGG 0.686332 5.1:-14157274 MS.gene64841:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACATATGGAAACTAAATT+TGG - chr5.1:14156969-14156988 MS.gene64841:CDS 20.0%
!! ATGGTTTAGAGAATATATTT+AGG - chr5.1:14157306-14157325 MS.gene64841:CDS 20.0%
!! CTTTGTGAAGAATTTATATT+CGG + chr5.1:14156910-14156929 None:intergenic 20.0%
!!! ATTTTCTTTAATCTGTAACA+TGG + chr5.1:14156823-14156842 None:intergenic 20.0%
! ATTAGAACCTTCACTTATAA+GGG + chr5.1:14157234-14157253 None:intergenic 25.0%
!!! GATCACATCTTTAAAACATA+TGG - chr5.1:14156956-14156975 MS.gene64841:CDS 25.0%
AGAGAATATATTTAGGCGTT+TGG - chr5.1:14157313-14157332 MS.gene64841:CDS 30.0%
CATGGAGAATTTCAATGAAT+TGG - chr5.1:14157184-14157203 MS.gene64841:CDS 30.0%
CATTAGAACCTTCACTTATA+AGG + chr5.1:14157235-14157254 None:intergenic 30.0%
TCTTCTATTAGAAGGAGAAA+GGG - chr5.1:14156858-14156877 MS.gene64841:CDS 30.0%
TTTCAATGAATTGGAATGTG+TGG - chr5.1:14157193-14157212 MS.gene64841:CDS 30.0%
! GCGATTGAAAGTATAGAAAA+TGG - chr5.1:14157287-14157306 MS.gene64841:CDS 30.0%
!! TCAATCAGTTTTGTCTTTCT+TGG - chr5.1:14157079-14157098 MS.gene64841:CDS 30.0%
AGTGATTACAGTTCTTAGAG+AGG - chr5.1:14157031-14157050 MS.gene64841:CDS 35.0%
CAAAGTCAAAGGCAACAAAA+TGG - chr5.1:14157114-14157133 MS.gene64841:CDS 35.0%
CCTTCTAATAGAAGAGTGAA+GGG + chr5.1:14156853-14156872 None:intergenic 35.0%
CTCTTCTATTAGAAGGAGAA+AGG - chr5.1:14156857-14156876 MS.gene64841:CDS 35.0%
GAAATTTGTGGAAGAGTTGT+TGG - chr5.1:14156752-14156771 MS.gene64841:CDS 35.0%
GAACTGTAATCACTGCAATA+AGG + chr5.1:14157025-14157044 None:intergenic 35.0%
TCCTTCTAATAGAAGAGTGA+AGG + chr5.1:14156854-14156873 None:intergenic 35.0%
TGGATCTTCATCAAAGTCAA+AGG - chr5.1:14157103-14157122 MS.gene64841:CDS 35.0%
TGTTGCACATGAAAGATTTG+AGG - chr5.1:14157253-14157272 MS.gene64841:CDS 35.0%
TTGAGAACCCTTATAAGTGA+AGG - chr5.1:14157224-14157243 MS.gene64841:CDS 35.0%
! ACATGAAAGATTTGAGGCTT+TGG - chr5.1:14157259-14157278 MS.gene64841:CDS 35.0%
! GATATAGCCTTTTGTGTTGA+TGG + chr5.1:14156717-14156736 None:intergenic 35.0%
! TTGATCTTGATTCGAAAGTG+AGG + chr5.1:14157000-14157019 None:intergenic 35.0%
!! GACAAAGTTGATGCAAAAGA+GGG - chr5.1:14157145-14157164 MS.gene64841:CDS 35.0%
!! TCAGTTTTGTCTTTCTTGGT+TGG - chr5.1:14157083-14157102 MS.gene64841:CDS 35.0%
!! TGACAAAGTTGATGCAAAAG+AGG - chr5.1:14157144-14157163 MS.gene64841:CDS 35.0%
!!! GTGAAAGTTTTGGATATCTG+TGG - chr5.1:14156783-14156802 MS.gene64841:CDS 35.0%
!!! TTCGGCTACACTTTTTTCAA+TGG + chr5.1:14156892-14156911 None:intergenic 35.0%
AAGGCTATATCTCACCATCA+AGG - chr5.1:14156726-14156745 MS.gene64841:CDS 40.0%
CCACAAATTTCTCACCTTGA+TGG + chr5.1:14156743-14156762 None:intergenic 40.0%
CCATCAAGGTGAGAAATTTG+TGG - chr5.1:14156740-14156759 MS.gene64841:CDS 40.0%
CCCTTCACTCTTCTATTAGA+AGG - chr5.1:14156850-14156869 MS.gene64841:CDS 40.0%
GGATATCTGTGGTATCACAA+GGG - chr5.1:14156794-14156813 MS.gene64841:CDS 40.0%
GGTATCATGTGAAGAGAACA+TGG - chr5.1:14157166-14157185 MS.gene64841:CDS 40.0%
TGGATATCTGTGGTATCACA+AGG - chr5.1:14156793-14156812 MS.gene64841:CDS 40.0%
TTTGTGGAAGAGTTGTTGGA+TGG - chr5.1:14156756-14156775 MS.gene64841:CDS 40.0%
! GGATGGTTCAGTGAAAGTTT+TGG - chr5.1:14156773-14156792 MS.gene64841:CDS 40.0%


Chromosome Type Strat End Strand Name
chr5.1 gene 14156711 14157379 14156711 ID=MS.gene64841
chr5.1 mRNA 14156711 14157379 14156711 ID=MS.gene64841.t1;Parent=MS.gene64841
chr5.1 exon 14156711 14157379 14156711 ID=MS.gene64841.t1.exon1;Parent=MS.gene64841.t1
chr5.1 CDS 14156711 14157379 14156711 ID=cds.MS.gene64841.t1;Parent=MS.gene64841.t1
Gene Sequence

>MS.gene64841

ATGCCATCAACACAAAAGGCTATATCTCACCATCAAGGTGAGAAATTTGTGGAAGAGTTGTTGGATGGTTCAGTGAAAGTTTTGGATATCTGTGGTATCACAAGGGACACCATGTTACAGATTAAAGAAAATGTTCAATCCCTTCACTCTTCTATTAGAAGGAGAAAGGGACATTCAACCATTGAAAAAAGTGTAGCCGAATATAAATTCTTCACAAAGAAGATGAAGAAGAATGTCACAAAGTTGATCACATCTTTAAAACATATGGAAACTAAATTTGGAGCTTCCTCACTTTCGAATCAAGATCAAGACCTTATTGCAGTGATTACAGTTCTTAGAGAGGTCATTGCAATGAACATGTCTATCTTTCAATCAGTTTTGTCTTTCTTGGTTGGATCTTCATCAAAGTCAAAGGCAACAAAATGGTTGACAGTGACAAAGTTGATGCAAAAGAGGGTATCATGTGAAGAGAACATGGAGAATTTCAATGAATTGGAATGTGTGGAAGCATCTTTGAGAACCCTTATAAGTGAAGGTTCTAATGTTGCACATGAAAGATTTGAGGCTTTGGAGAATGCGATTGAAAGTATAGAAAATGGTTTAGAGAATATATTTAGGCGTTTGGTTAAAACTAGAGTCTGTCTTTTGAACATCATGACTCTATCTTAG
Protein sequence

>MS.gene64841.t1

MPSTQKAISHHQGEKFVEELLDGSVKVLDICGITRDTMLQIKENVQSLHSSIRRRKGHSTIEKSVAEYKFFTKKMKKNVTKLITSLKHMETKFGASSLSNQDQDLIAVITVLREVIAMNMSIFQSVLSFLVGSSSKSKATKWLTVTKLMQKRVSCEENMENFNELECVEASLRTLISEGSNVAHERFEALENAIESIENGLENIFRRLVKTRVCLLNIMTLS