AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene67588

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene67588.t1 MTR_5g023350 92.405 158 12 0 1 158 1 158 7.44e-97 281
MS.gene67588.t1 MTR_5g023340 91.139 158 14 0 1 158 1 158 7.98e-96 279
MS.gene67588.t1 MTR_5g023600 90.506 158 15 0 1 158 1 158 2.11e-95 278
MS.gene67588.t1 MTR_5g023390 87.975 158 19 0 1 158 1 158 3.19e-93 272
MS.gene67588.t1 MTR_5g023530 86.709 158 21 0 1 158 1 158 2.22e-91 267
MS.gene67588.t1 MTR_5g023580 87.975 158 19 0 1 158 1 158 1.49e-90 268
MS.gene67588.t1 MTR_5g023370 86.076 158 22 0 1 158 1 158 1.77e-90 265
MS.gene67588.t1 MTR_5g023470 85.443 158 23 0 1 158 1 158 9.61e-90 263
MS.gene67588.t1 MTR_5g023320 85.535 159 22 1 1 158 1 159 3.24e-89 262
MS.gene67588.t1 MTR_5g023520 86.709 158 20 1 1 158 1 157 3.69e-89 262
MS.gene67588.t1 MTR_5g023550 86.709 158 20 1 1 158 1 157 4.96e-89 261
MS.gene67588.t1 MTR_8g074450 73.780 164 38 1 4 162 3 166 1.19e-83 248
MS.gene67588.t1 MTR_8g074510 69.481 154 45 1 5 158 4 155 2.49e-74 224
MS.gene67588.t1 MTR_8g074420 68.485 165 47 1 3 162 2 166 4.19e-74 224
MS.gene67588.t1 MTR_5g023410 88.889 99 11 0 3 101 2 100 1.11e-52 166
MS.gene67588.t1 MTR_8g074530 46.497 157 81 2 3 158 17 171 6.88e-38 131
MS.gene67588.t1 MTR_5g023290 40.373 161 91 2 3 158 9 169 1.65e-31 115
MS.gene67588.t1 MTR_8g074380 38.415 164 93 2 1 156 7 170 6.90e-29 108
MS.gene67588.t1 MTR_5g023460 86.207 58 8 0 101 158 12 69 1.23e-28 104
MS.gene67588.t1 MTR_4g070540 36.986 146 91 1 7 151 13 158 7.64e-25 97.4
MS.gene67588.t1 MTR_5g023650 36.129 155 93 2 8 156 14 168 1.14e-24 97.1
MS.gene67588.t1 MTR_4g070530 37.671 146 90 1 7 151 13 158 8.02e-24 94.7
MS.gene67588.t1 MTR_4g070590 36.709 158 95 3 3 156 10 166 1.00e-20 86.7
MS.gene67588.t1 MTR_3g116950 36.242 149 90 4 6 151 12 158 8.71e-19 81.3
MS.gene67588.t1 MTR_4g070570 31.757 148 96 3 6 151 15 159 3.06e-18 79.7
MS.gene67588.t1 MTR_3g115150 29.333 150 95 3 6 151 27 169 7.09e-18 79.0
MS.gene67588.t1 MTR_3g116920 32.000 150 97 3 6 151 12 160 1.75e-13 66.6
MS.gene67588.t1 MTR_1g037820 34.653 101 65 1 52 151 9 109 2.42e-13 65.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene67588.t1 AT4G35690 41.722 151 84 2 5 152 7 156 1.44e-35 125
MS.gene67588.t1 AT4G35710 41.447 152 82 3 5 151 7 156 2.90e-32 116
MS.gene67588.t1 AT2G17680 41.975 162 77 4 1 151 3 158 4.07e-30 111
MS.gene67588.t1 AT2G17080 43.836 146 80 1 6 151 5 148 1.45e-29 108
MS.gene67588.t1 AT4G35200 41.060 151 80 3 6 156 5 146 6.86e-28 104
MS.gene67588.t1 AT4G35210 39.241 158 87 3 6 163 5 153 8.50e-28 104
MS.gene67588.t1 AT2G17070 41.096 146 84 1 6 151 5 148 1.04e-26 101
MS.gene67588.t1 AT4G35720 34.694 147 90 4 6 148 14 158 1.60e-17 78.2
MS.gene67588.t1 AT4G35660 33.962 159 101 4 1 156 9 166 2.88e-17 77.0
MS.gene67588.t1 AT1G76240 27.742 155 101 3 6 156 29 176 1.02e-16 75.9
MS.gene67588.t1 AT4G35680 35.256 156 91 2 8 156 18 170 1.80e-16 75.1
MS.gene67588.t1 AT3G51410 35.821 134 72 3 8 141 39 158 1.23e-11 61.6

Find 28 sgRNAs with CRISPR-Local

Find 30 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAACATAAGGAAACTAAATT+TGG 0.177473 5.2:+14248580 MS.gene67588:CDS
GGCTTCCCATGTCTTGATTT+TGG 0.206130 5.2:-14248215 None:intergenic
GGATGGTTCAGTCAGAATTT+TGG 0.244047 5.2:+14248384 MS.gene67588:CDS
TGAAGATTTGTATATTTCTT+TGG 0.280108 5.2:+14248285 MS.gene67588:CDS
CCACAAATTTCTCACCTTGA+TGG 0.298231 5.2:-14248351 None:intergenic
TGTTCTATTCTAGTGGAGTT+AGG 0.320329 5.2:-14248184 None:intergenic
CACTTCACTCTTCTCTTAGA+AGG 0.337508 5.2:+14248461 MS.gene67588:CDS
GAAATTTGTGGAAGAGTTGT+TGG 0.365610 5.2:+14248363 MS.gene67588:CDS
CTCACCTTGATGGTTAGAAA+TGG 0.407617 5.2:-14248341 None:intergenic
GATCACATCTTTAAAACATA+AGG 0.417807 5.2:+14248567 MS.gene67588:CDS
TAGGTCTTGTTCTATTCTAG+TGG 0.442561 5.2:-14248191 None:intergenic
CCATCAAGGTGAGAAATTTG+TGG 0.454188 5.2:+14248351 MS.gene67588:CDS
CTCTTCTCTTAGAAGGAGAA+GGG 0.490473 5.2:+14248468 MS.gene67588:CDS
ACTCTTCTCTTAGAAGGAGA+AGG 0.492722 5.2:+14248467 MS.gene67588:CDS
GAGTTAGGATGAGATTGAGA+AGG 0.535434 5.2:-14248169 None:intergenic
TTCAAGAAATGAAAGGCCAT+TGG 0.560471 5.2:-14248266 None:intergenic
TGGATATATGTGGCATCACA+AGG 0.575321 5.2:+14248404 MS.gene67588:CDS
GAAAACTATTTGAGCGAACA+TGG 0.586233 5.2:-14248147 None:intergenic
ACAAATCTTCAAGAAATGAA+AGG 0.588246 5.2:-14248273 None:intergenic
AAAGCCATTTCTAACCATCA+AGG 0.589581 5.2:+14248337 MS.gene67588:CDS
ACCTAACCAAAATCAAGACA+TGG 0.597023 5.2:+14248209 MS.gene67588:CDS
TTGATCTTGATTCAAAAGTG+AGG 0.609457 5.2:-14248610 None:intergenic
TTTGTGGAAGAGTTGTTGGA+TGG 0.615570 5.2:+14248367 MS.gene67588:CDS
ACATCTGATTCAATTACCAA+TGG 0.619749 5.2:+14248250 MS.gene67588:CDS
ATTGGTAATTGAATCAGATG+TGG 0.626315 5.2:-14248248 None:intergenic
ATCAGATGTGGATGTTGATG+CGG 0.638432 5.2:-14248236 None:intergenic
CCTAACCAAAATCAAGACAT+GGG 0.643436 5.2:+14248210 MS.gene67588:CDS
TCTTCTCTTAGAAGGAGAAG+GGG 0.654023 5.2:+14248469 MS.gene67588:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTTTCTTTAATTTGTAACA+CGG - chr5.2:14248434-14248453 None:intergenic 15.0%
!! AAACATAAGGAAACTAAATT+TGG + chr5.2:14248580-14248599 MS.gene67588:CDS 20.0%
!! TGAAGATTTGTATATTTCTT+TGG + chr5.2:14248285-14248304 MS.gene67588:CDS 20.0%
! ACAAATCTTCAAGAAATGAA+AGG - chr5.2:14248276-14248295 None:intergenic 25.0%
!!! GATCACATCTTTAAAACATA+AGG + chr5.2:14248567-14248586 MS.gene67588:CDS 25.0%
ACATCTGATTCAATTACCAA+TGG + chr5.2:14248250-14248269 MS.gene67588:CDS 30.0%
! ATTGGTAATTGAATCAGATG+TGG - chr5.2:14248251-14248270 None:intergenic 30.0%
! GTCAGAATTTTGGATATATG+TGG + chr5.2:14248394-14248413 MS.gene67588:CDS 30.0%
AAAGCCATTTCTAACCATCA+AGG + chr5.2:14248337-14248356 MS.gene67588:CDS 35.0%
ACCTAACCAAAATCAAGACA+TGG + chr5.2:14248209-14248228 MS.gene67588:CDS 35.0%
CCTAACCAAAATCAAGACAT+GGG + chr5.2:14248210-14248229 MS.gene67588:CDS 35.0%
GAAAACTATTTGAGCGAACA+TGG - chr5.2:14248150-14248169 None:intergenic 35.0%
GAAATTTGTGGAAGAGTTGT+TGG + chr5.2:14248363-14248382 MS.gene67588:CDS 35.0%
TGTTCTATTCTAGTGGAGTT+AGG - chr5.2:14248187-14248206 None:intergenic 35.0%
TTCAAGAAATGAAAGGCCAT+TGG - chr5.2:14248269-14248288 None:intergenic 35.0%
!! TAGGTCTTGTTCTATTCTAG+TGG - chr5.2:14248194-14248213 None:intergenic 35.0%
ACTCTTCTCTTAGAAGGAGA+AGG + chr5.2:14248467-14248486 MS.gene67588:CDS 40.0%
ATCAGATGTGGATGTTGATG+CGG - chr5.2:14248239-14248258 None:intergenic 40.0%
CACTTCACTCTTCTCTTAGA+AGG + chr5.2:14248461-14248480 MS.gene67588:CDS 40.0%
CCACAAATTTCTCACCTTGA+TGG - chr5.2:14248354-14248373 None:intergenic 40.0%
CCATCAAGGTGAGAAATTTG+TGG + chr5.2:14248351-14248370 MS.gene67588:CDS 40.0%
CTCTTCTCTTAGAAGGAGAA+GGG + chr5.2:14248468-14248487 MS.gene67588:CDS 40.0%
GAGTTAGGATGAGATTGAGA+AGG - chr5.2:14248172-14248191 None:intergenic 40.0%
TCTTCTCTTAGAAGGAGAAG+GGG + chr5.2:14248469-14248488 MS.gene67588:CDS 40.0%
TGGATATATGTGGCATCACA+AGG + chr5.2:14248404-14248423 MS.gene67588:CDS 40.0%
TTTGTGGAAGAGTTGTTGGA+TGG + chr5.2:14248367-14248386 MS.gene67588:CDS 40.0%
! CTCACCTTGATGGTTAGAAA+TGG - chr5.2:14248344-14248363 None:intergenic 40.0%
! GGATGGTTCAGTCAGAATTT+TGG + chr5.2:14248384-14248403 MS.gene67588:CDS 40.0%
!!! CCCATGTCTTGATTTTGGTT+AGG - chr5.2:14248213-14248232 None:intergenic 40.0%
! GGCTTCCCATGTCTTGATTT+TGG - chr5.2:14248218-14248237 None:intergenic 45.0%


Chromosome Type Strat End Strand Name
chr5.2 gene 14248130 14248621 14248130 ID=MS.gene67588
chr5.2 mRNA 14248130 14248621 14248130 ID=MS.gene67588.t1;Parent=MS.gene67588
chr5.2 exon 14248130 14248621 14248130 ID=MS.gene67588.t1.exon1;Parent=MS.gene67588.t1
chr5.2 CDS 14248130 14248621 14248130 ID=cds.MS.gene67588.t1;Parent=MS.gene67588.t1
Gene Sequence

>MS.gene67588

ATGGCAAGCAACAAGTACCATGTTCGCTCAAATAGTTTTCCTTCTCAATCTCATCCTAACTCCACTAGAATAGAACAAGACCTAACCAAAATCAAGACATGGGAAGCCGCATCAACATCCACATCTGATTCAATTACCAATGGCCTTTCATTTCTTGAAGATTTGTATATTTCTTTGGAAGATCTTCTCAATATGTCATCAACACAAAAAGCCATTTCTAACCATCAAGGTGAGAAATTTGTGGAAGAGTTGTTGGATGGTTCAGTCAGAATTTTGGATATATGTGGCATCACAAGGTACACCGTGTTACAAATTAAAGAAAATGTTCAATCACTTCACTCTTCTCTTAGAAGGAGAAGGGGAGATTCAAGCATTGAAAAAAGTGTAGCAGAATATAAATTCTTCACAAAGAAAATGAAGAAGAATGTCACAAAGTTGATCACATCTTTAAAACATAAGGAAACTAAATTTGGAGAGCTTCCTCACTTTTGA
Protein sequence

>MS.gene67588.t1

MASNKYHVRSNSFPSQSHPNSTRIEQDLTKIKTWEAASTSTSDSITNGLSFLEDLYISLEDLLNMSSTQKAISNHQGEKFVEELLDGSVRILDICGITRYTVLQIKENVQSLHSSLRRRRGDSSIEKSVAEYKFFTKKMKKNVTKLITSLKHKETKFGELPHF