AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene41203

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene41203.t1 MTR_4g063220 98.649 148 2 0 1 148 1 148 2.04e-101 287
MS.gene41203.t1 MTR_4g063990 98.649 148 2 0 1 148 1 148 2.04e-101 287
MS.gene41203.t1 MTR_4g063200 98.649 148 2 0 1 148 1 148 2.04e-101 287
MS.gene41203.t1 MTR_4g064020 98.649 148 2 0 1 148 1 148 2.04e-101 287
MS.gene41203.t1 MTR_4g071180 98.649 148 2 0 1 148 1 148 3.69e-101 286
MS.gene41203.t1 MTR_4g070240 98.649 148 2 0 1 148 1 148 3.69e-101 286
MS.gene41203.t1 MTR_4g070245 97.297 148 4 0 1 148 1 148 1.12e-99 283
MS.gene41203.t1 MTR_4g063240 97.973 148 2 1 1 148 1 147 3.62e-99 281
MS.gene41203.t1 MTR_4g064983 97.917 144 3 0 1 144 1 144 3.51e-96 277
MS.gene41203.t1 MTR_4g088025 94.595 148 3 1 1 148 1 143 3.25e-95 271
MS.gene41203.t1 MTR_4g063275 95.946 148 6 0 1 148 1 148 6.68e-93 265
MS.gene41203.t1 MTR_1g090780 89.189 148 5 3 1 148 1 137 1.93e-78 228
MS.gene41203.t1 MTR_1g492910 88.514 148 6 3 1 148 1 137 8.65e-78 227
MS.gene41203.t1 MTR_1g068600 92.793 111 4 1 38 148 30 136 3.45e-64 192
MS.gene41203.t1 MTR_7g099960 92.793 111 5 1 38 148 31 138 7.03e-64 192
MS.gene41203.t1 MTR_2g084480 61.798 89 34 0 59 147 136 224 5.25e-37 126
MS.gene41203.t1 MTR_8g069990 67.742 93 22 3 15 107 4 88 1.43e-33 114
MS.gene41203.t1 MTR_4g063270 90.196 51 5 0 86 136 1 51 5.36e-27 95.9
MS.gene41203.t1 MTR_7g114580 90.244 41 4 0 108 148 11 51 8.98e-20 77.4
MS.gene41203.t1 MTR_4g032777 36.792 106 63 2 31 132 5 110 3.55e-13 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene41203.t1 AT3G45980 88.742 151 13 2 1 148 1 150 2.03e-83 241
MS.gene41203.t1 AT2G28720 86.093 151 18 1 1 148 1 151 1.29e-80 234
MS.gene41203.t1 AT1G07790 86.275 153 11 3 1 148 1 148 1.20e-79 232
MS.gene41203.t1 AT5G59910 91.176 136 9 2 13 148 18 150 2.52e-77 226
MS.gene41203.t1 AT3G46030 94.444 126 6 1 23 148 21 145 1.02e-75 222
MS.gene41203.t1 AT2G37470 81.757 148 16 3 1 147 1 138 7.43e-71 209
MS.gene41203.t1 AT3G53650 81.879 149 15 3 1 148 1 138 9.76e-70 207
MS.gene41203.t1 AT5G22880 86.897 145 17 2 4 148 3 145 5.80e-67 200
MS.gene41203.t1 AT5G02570 79.730 148 14 1 1 148 1 132 1.10e-66 199
MS.gene41203.t1 AT3G09480 84.127 126 16 1 23 148 5 126 2.52e-62 187
MS.gene41203.t1 AT1G08170 56.989 93 40 0 53 145 143 235 1.73e-37 128

Find 44 sgRNAs with CRISPR-Local

Find 41 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGAAGTTTCTTCCCTGCCTT+TGG 0.325133 4.1:-37065981 None:intergenic
TTGCTTGAGATACCAATGTC+TGG 0.335174 4.1:-37066107 None:intergenic
CTTCTCCGCCGGAGCTTTCT+CGG 0.336863 4.1:-37065955 None:intergenic
GCAGTCAGGCTTGTTCTTCC+CGG 0.344386 4.1:+37066248 MS.gene41203:CDS
GCTTGTTCTTCCCGGTGAAT+TGG 0.368237 4.1:+37066256 MS.gene41203:CDS
GCTGGCTTCTTCTCTCCCTT+TGG 0.368494 4.1:-37065894 None:intergenic
GCCTTTGGCTTCTTCTCCGC+CGG 0.402654 4.1:-37065966 None:intergenic
ATTTCCCTGGAAGTGATTGT+TGG 0.430207 4.1:-37066218 None:intergenic
CTCTGATTCAATGGCACCAA+AGG 0.436385 4.1:+37065878 None:intergenic
GCGGAGAAGAAGCCAAAGGC+AGG 0.445065 4.1:+37065969 MS.gene41203:CDS
TCAGCGGGTTTCTTCTCCGC+TGG 0.467762 4.1:-37065912 None:intergenic
GCAGCTGAACCACCTTCCTT+AGG 0.469489 4.1:-37066002 None:intergenic
TCTCTTCTTCTTCTTGTCTC+CGG 0.474508 4.1:-37066024 None:intergenic
ACCCTCAGAGACAGCATGCT+TGG 0.475334 4.1:-37066279 None:intergenic
AGAAGCCAACAATCACTTCC+AGG 0.480188 4.1:+37066213 MS.gene41203:CDS
GTGGACTTCTTCTCCTCAGC+GGG 0.481029 4.1:-37065927 None:intergenic
AGCATGCTTGGCCAATTCAC+CGG 0.481273 4.1:-37066267 None:intergenic
GACTGCAGTCTGAATTTCCC+TGG 0.481720 4.1:-37066231 None:intergenic
AAGGAAGGTGGTTCAGCTGC+CGG 0.489603 4.1:+37066005 MS.gene41203:CDS
GGGAAATTCAGACTGCAGTC+AGG 0.504618 4.1:+37066234 MS.gene41203:CDS
CACTGTCGCCGAGAAAGCTC+CGG 0.513687 4.1:+37065947 MS.gene41203:CDS
TGCTTGAGATACCAATGTCT+GGG 0.532971 4.1:-37066106 None:intergenic
TGGTATCTCAAGCAAAGCCA+TGG 0.533917 4.1:+37066115 MS.gene41203:CDS
GATCTAAGAACTAGTAAACT+TGG 0.537226 4.1:-37066315 None:intergenic
GCATGCTTGGCCAATTCACC+GGG 0.547334 4.1:-37066266 None:intergenic
TCTGATTCAATGGCACCAAA+GGG 0.547354 4.1:+37065879 None:intergenic
AGTAAACTTGGTCACAGCCT+TGG 0.548318 4.1:-37066303 None:intergenic
CGGAGAAGAAGCCAAAGGCA+GGG 0.564014 4.1:+37065970 MS.gene41203:CDS
GCCAAGCATGCTGTCTCTGA+GGG 0.566391 4.1:+37066278 MS.gene41203:CDS
TGCTGTCTCTGAGGGTACCA+AGG 0.572597 4.1:+37066286 MS.gene41203:CDS
GGCCAAGCATGCTGTCTCTG+AGG 0.598295 4.1:+37066277 MS.gene41203:CDS
GGCAGGGAAGAAACTTCCTA+AGG 0.600526 4.1:+37065986 MS.gene41203:CDS
AAACAAGTTCACCCAGACAT+TGG 0.612279 4.1:+37066095 MS.gene41203:CDS
GGGAAGAAACTTCCTAAGGA+AGG 0.616423 4.1:+37065990 MS.gene41203:CDS
TCCGGCGGAGAAGAAGCCAA+AGG 0.620050 4.1:+37065965 MS.gene41203:CDS
GAAACTGTTCATGATTCCCA+TGG 0.633384 4.1:-37066132 None:intergenic
GAAGCCAACAATCACTTCCA+GGG 0.639164 4.1:+37066214 MS.gene41203:CDS
AAAGGGAGAGAAGAAGCCAG+CGG 0.642633 4.1:+37065896 MS.gene41203:CDS
CGGAGCTTTCTCGGCGACAG+TGG 0.645301 4.1:-37065946 None:intergenic
AAGAAACTTCCTAAGGAAGG+TGG 0.647363 4.1:+37065993 MS.gene41203:CDS
GGTATCTCAAGCAAAGCCAT+GGG 0.654333 4.1:+37066116 MS.gene41203:CDS
TGTCGCCGAGAAAGCTCCGG+CGG 0.656886 4.1:+37065950 MS.gene41203:CDS
AGTGGACTTCTTCTCCTCAG+CGG 0.659028 4.1:-37065928 None:intergenic
AGCGGAGAAGAAACCCGCTG+AGG 0.708553 4.1:+37065914 MS.gene41203:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAACAAGTTCACCCAGACAT+TGG + chr4.1:37066095-37066114 MS.gene41203:CDS 40.0%
AAGAAACTTCCTAAGGAAGG+TGG + chr4.1:37065993-37066012 MS.gene41203:CDS 40.0%
ATTTCCCTGGAAGTGATTGT+TGG - chr4.1:37066221-37066240 None:intergenic 40.0%
GAAACTGTTCATGATTCCCA+TGG - chr4.1:37066135-37066154 None:intergenic 40.0%
TCTCTTCTTCTTCTTGTCTC+CGG - chr4.1:37066027-37066046 None:intergenic 40.0%
TGCTTGAGATACCAATGTCT+GGG - chr4.1:37066109-37066128 None:intergenic 40.0%
TTGCTTGAGATACCAATGTC+TGG - chr4.1:37066110-37066129 None:intergenic 40.0%
AGAAGCCAACAATCACTTCC+AGG + chr4.1:37066213-37066232 MS.gene41203:CDS 45.0%
AGTAAACTTGGTCACAGCCT+TGG - chr4.1:37066306-37066325 None:intergenic 45.0%
GAAGCCAACAATCACTTCCA+GGG + chr4.1:37066214-37066233 MS.gene41203:CDS 45.0%
GGGAAGAAACTTCCTAAGGA+AGG + chr4.1:37065990-37066009 MS.gene41203:CDS 45.0%
GGTATCTCAAGCAAAGCCAT+GGG + chr4.1:37066116-37066135 MS.gene41203:CDS 45.0%
TGGTATCTCAAGCAAAGCCA+TGG + chr4.1:37066115-37066134 MS.gene41203:CDS 45.0%
AAAGGGAGAGAAGAAGCCAG+CGG + chr4.1:37065896-37065915 MS.gene41203:CDS 50.0%
AGCATGCTTGGCCAATTCAC+CGG - chr4.1:37066270-37066289 None:intergenic 50.0%
GACTGCAGTCTGAATTTCCC+TGG - chr4.1:37066234-37066253 None:intergenic 50.0%
GCTTGTTCTTCCCGGTGAAT+TGG + chr4.1:37066256-37066275 MS.gene41203:CDS 50.0%
GGAAGTTTCTTCCCTGCCTT+TGG - chr4.1:37065984-37066003 None:intergenic 50.0%
GGCAGGGAAGAAACTTCCTA+AGG + chr4.1:37065986-37066005 MS.gene41203:CDS 50.0%
GGGAAATTCAGACTGCAGTC+AGG + chr4.1:37066234-37066253 MS.gene41203:CDS 50.0%
! AGTGGACTTCTTCTCCTCAG+CGG - chr4.1:37065931-37065950 None:intergenic 50.0%
AAGGAAGGTGGTTCAGCTGC+CGG + chr4.1:37066005-37066024 MS.gene41203:CDS 55.0%
ACCCTCAGAGACAGCATGCT+TGG - chr4.1:37066282-37066301 None:intergenic 55.0%
CGGAGAAGAAGCCAAAGGCA+GGG + chr4.1:37065970-37065989 MS.gene41203:CDS 55.0%
GCAGCTGAACCACCTTCCTT+AGG - chr4.1:37066005-37066024 None:intergenic 55.0%
GCATGCTTGGCCAATTCACC+GGG - chr4.1:37066269-37066288 None:intergenic 55.0%
GCCAAGCATGCTGTCTCTGA+GGG + chr4.1:37066278-37066297 MS.gene41203:CDS 55.0%
GTGGACTTCTTCTCCTCAGC+GGG - chr4.1:37065930-37065949 None:intergenic 55.0%
! GCAGTCAGGCTTGTTCTTCC+CGG + chr4.1:37066248-37066267 MS.gene41203:CDS 55.0%
! GCTGGCTTCTTCTCTCCCTT+TGG - chr4.1:37065897-37065916 None:intergenic 55.0%
!! TGCTGTCTCTGAGGGTACCA+AGG + chr4.1:37066286-37066305 MS.gene41203:CDS 55.0%
AGCGGAGAAGAAACCCGCTG+AGG + chr4.1:37065914-37065933 MS.gene41203:CDS 60.0%
CACTGTCGCCGAGAAAGCTC+CGG + chr4.1:37065947-37065966 MS.gene41203:CDS 60.0%
CTTCTCCGCCGGAGCTTTCT+CGG - chr4.1:37065958-37065977 None:intergenic 60.0%
GCGGAGAAGAAGCCAAAGGC+AGG + chr4.1:37065969-37065988 MS.gene41203:CDS 60.0%
GGCCAAGCATGCTGTCTCTG+AGG + chr4.1:37066277-37066296 MS.gene41203:CDS 60.0%
TCCGGCGGAGAAGAAGCCAA+AGG + chr4.1:37065965-37065984 MS.gene41203:CDS 60.0%
! GCCTTTGGCTTCTTCTCCGC+CGG - chr4.1:37065969-37065988 None:intergenic 60.0%
! TCAGCGGGTTTCTTCTCCGC+TGG - chr4.1:37065915-37065934 None:intergenic 60.0%
CGGAGCTTTCTCGGCGACAG+TGG - chr4.1:37065949-37065968 None:intergenic 65.0%
TGTCGCCGAGAAAGCTCCGG+CGG + chr4.1:37065950-37065969 MS.gene41203:CDS 65.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 37065888 37066334 37065888 ID=MS.gene41203
chr4.1 mRNA 37065888 37066334 37065888 ID=MS.gene41203.t1;Parent=MS.gene41203
chr4.1 exon 37065888 37066334 37065888 ID=MS.gene41203.t1.exon1;Parent=MS.gene41203.t1
chr4.1 CDS 37065888 37066334 37065888 ID=cds.MS.gene41203.t1;Parent=MS.gene41203.t1
Gene Sequence

>MS.gene41203

ATGGCACCAAAGGGAGAGAAGAAGCCAGCGGAGAAGAAACCCGCTGAGGAGAAGAAGTCCACTGTCGCCGAGAAAGCTCCGGCGGAGAAGAAGCCAAAGGCAGGGAAGAAACTTCCTAAGGAAGGTGGTTCAGCTGCCGGAGACAAGAAGAAGAAGAGAAACAAGAAGAGTGTAGAAACATACAAGATCTACATATTCAAAGTACTGAAACAAGTTCACCCAGACATTGGTATCTCAAGCAAAGCCATGGGAATCATGAACAGTTTCATCAATGATATCTTCGAGAAGCTTGCTCAAGAATCATCAAGACTTGCTCGTTACAACAAGAAGCCAACAATCACTTCCAGGGAAATTCAGACTGCAGTCAGGCTTGTTCTTCCCGGTGAATTGGCCAAGCATGCTGTCTCTGAGGGTACCAAGGCTGTGACCAAGTTTACTAGTTCTTAG
Protein sequence

>MS.gene41203.t1

MAPKGEKKPAEKKPAEEKKSTVAEKAPAEKKPKAGKKLPKEGGSAAGDKKKKRNKKSVETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQESSRLARYNKKPTITSREIQTAVRLVLPGELAKHAVSEGTKAVTKFTSS