AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene36932

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene36932.t1 MTR_4g024710 70.690 232 68 0 1 232 116 347 1.37e-117 339
MS.gene36932.t1 MTR_8g014260 71.674 233 64 2 1 232 220 451 3.22e-110 324
MS.gene36932.t1 MTR_4g024745 67.907 215 69 0 1 215 70 284 1.71e-96 283
MS.gene36932.t1 MTR_8g014210 61.638 232 88 1 1 232 1 231 2.48e-93 273
MS.gene36932.t1 MTR_8g445780 65.591 186 63 1 1 186 206 390 5.64e-76 234
MS.gene36932.t1 MTR_8g077460 67.586 145 47 0 88 232 231 375 4.69e-61 196
MS.gene36932.t1 MTR_2g083840 46.444 239 119 7 1 232 221 457 2.66e-51 172
MS.gene36932.t1 MTR_5g092960 47.679 237 106 6 9 231 229 461 8.02e-51 171
MS.gene36932.t1 MTR_8g062270 44.813 241 117 7 1 231 219 453 3.21e-49 167
MS.gene36932.t1 MTR_8g467800 44.770 239 115 8 6 232 220 453 1.03e-47 163
MS.gene36932.t1 MTR_8g058970 45.122 246 118 8 1 232 235 477 1.56e-43 152
MS.gene36932.t1 MTR_8g468810 43.443 244 122 9 1 232 224 463 2.32e-43 152
MS.gene36932.t1 MTR_8g014160 40.678 236 80 4 2 232 245 425 6.25e-42 147
MS.gene36932.t1 MTR_8g468840 43.103 232 119 8 6 229 221 447 2.56e-40 144
MS.gene36932.t1 MTR_4g032730 40.562 249 112 8 10 231 227 466 2.57e-36 133
MS.gene36932.t1 MTR_8g468760 39.916 238 99 7 4 231 215 418 1.18e-34 128
MS.gene36932.t1 MTR_8g014230 64.773 88 30 1 145 232 18 104 2.71e-34 119
MS.gene36932.t1 MTR_8g062310 45.213 188 94 7 51 232 244 428 5.65e-34 126
MS.gene36932.t1 MTR_8g062010 41.361 191 97 6 51 232 246 430 1.24e-32 123
MS.gene36932.t1 MTR_8g469020 43.011 186 100 6 51 232 268 451 1.83e-32 122
MS.gene36932.t1 MTR_8g070950 40.513 195 109 6 44 232 241 434 2.49e-32 122
MS.gene36932.t1 MTR_8g058965 39.076 238 135 8 1 232 223 456 2.71e-30 117
MS.gene36932.t1 MTR_8g062080 37.824 193 108 6 51 232 254 445 4.22e-29 113
MS.gene36932.t1 MTR_2g086020 47.887 142 70 4 94 232 175 315 4.58e-27 106
MS.gene36932.t1 MTR_8g062300 37.313 201 107 5 51 232 277 477 1.36e-26 107
MS.gene36932.t1 MTR_5g092960 47.482 139 63 3 9 139 229 365 2.14e-20 89.0
MS.gene36932.t1 MTR_4g050250 36.842 190 103 8 1 178 235 419 1.06e-19 87.4
MS.gene36932.t1 MTR_8g468810 43.151 146 74 6 3 142 226 368 3.46e-17 79.7
MS.gene36932.t1 MTR_5g084070 31.532 222 140 7 8 224 205 419 1.17e-14 72.8
MS.gene36932.t1 MTR_7g098510 37.121 132 76 4 108 232 260 391 6.79e-13 67.4
MS.gene36932.t1 MTR_1g041245 32.510 243 132 11 8 232 158 386 1.33e-12 66.6
MS.gene36932.t1 MTR_5g008950 31.579 133 82 3 108 232 234 365 2.47e-11 62.8
MS.gene36932.t1 MTR_5g012840 35.714 126 76 3 111 232 194 318 4.40e-11 62.0
MS.gene36932.t1 MTR_5g080710 30.045 223 143 8 8 224 231 446 4.64e-11 62.4
MS.gene36932.t1 MTR_3g099800 39.506 81 46 2 146 223 19 99 7.48e-11 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene36932.t1 AT4G26340 28.992 238 153 5 1 232 192 419 6.20e-20 87.8
MS.gene36932.t1 AT5G56800 30.952 210 123 9 28 231 150 343 3.63e-16 76.6
MS.gene36932.t1 AT1G32375 27.885 208 137 4 28 232 225 422 1.25e-15 75.5
MS.gene36932.t1 AT1G32375 27.885 208 137 4 28 232 225 422 1.25e-15 75.5
MS.gene36932.t1 AT1G51055 34.351 131 73 4 110 232 36 161 9.49e-14 67.0
MS.gene36932.t1 AT3G54910 26.724 232 149 8 6 232 158 373 3.12e-12 65.5
MS.gene36932.t1 AT3G54910 26.724 232 149 8 6 232 158 373 3.12e-12 65.5
MS.gene36932.t1 AT3G54910 26.724 232 149 8 6 232 158 373 3.12e-12 65.5
MS.gene36932.t1 AT5G38570 27.193 228 152 6 6 231 160 375 1.57e-11 63.5
MS.gene36932.t1 AT5G56570 25.000 232 151 9 8 232 224 439 2.49e-11 63.2
MS.gene36932.t1 AT5G56370 25.941 239 144 6 8 231 200 420 2.52e-11 63.2
MS.gene36932.t1 AT5G56370 25.941 239 144 6 8 231 200 420 2.52e-11 63.2
MS.gene36932.t1 AT5G56452 28.821 229 117 9 23 232 26 227 7.98e-11 60.5

Find 48 sgRNAs with CRISPR-Local

Find 72 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTGACCTTTATTCAATTTAA+AGG 0.140904 8.4:-76757213 MS.gene36932:CDS
AAAACCTTTAAATTGAATAA+AGG 0.336412 8.4:+76757209 None:intergenic
AGGTGCGATATGAGACAATT+AGG 0.354804 8.4:+76757234 None:intergenic
CATCTAGGAGCTTGAGTAAT+GGG 0.366341 8.4:+76757847 None:intergenic
CAAAACTTAACCTTAGTTGT+TGG 0.373804 8.4:+76757789 None:intergenic
CATCTCTATCCCATGTCGTT+TGG 0.377720 8.4:-76757879 MS.gene36932:CDS
TGTGGAGCCCATCCTAAAAT+TGG 0.389214 8.4:+76757267 None:intergenic
ATTTAGAGCTCATGCTGACC+TGG 0.395215 8.4:-76757557 MS.gene36932:CDS
GATTATTTCTGATATTTCCT+TGG 0.407803 8.4:-76757118 MS.gene36932:CDS
AACATCATGGAATGGGCATT+GGG 0.425635 8.4:+76757944 None:intergenic
GAATGTCGTACTTCTCCCTT+TGG 0.427201 8.4:+76757094 None:intergenic
AAACATCATGGAATGGGCAT+TGG 0.430298 8.4:+76757943 None:intergenic
TCAAATGTGTCAAGGGCCTC+TGG 0.439865 8.4:-76757060 MS.gene36932:CDS
TGATATTTCCTTGGACCAAA+GGG 0.451414 8.4:-76757109 MS.gene36932:CDS
ATGGGCATTGGGTAATGTTA+AGG 0.460508 8.4:+76757955 None:intergenic
AAGCTCCTAGATGCTCTGTC+CGG 0.462781 8.4:-76757837 MS.gene36932:CDS
TTTGAGTAGTCCAACAACTA+AGG 0.473906 8.4:-76757799 MS.gene36932:intron
TCAACAAATGACATCTCATC+TGG 0.477145 8.4:+76757177 None:intergenic
CTTTAAATTGAATAAAGGTC+AGG 0.486856 8.4:+76757214 None:intergenic
CTGATATTTCCTTGGACCAA+AGG 0.487521 8.4:-76757110 MS.gene36932:CDS
TGTTTAAAACATCATGGAAT+GGG 0.490438 8.4:+76757937 None:intergenic
TCTGCGTGTTTAAAACATCA+TGG 0.491336 8.4:+76757931 None:intergenic
ACATCCCACCTACCTTGAAA+AGG 0.492710 8.4:-76758046 MS.gene36932:CDS
TTGTCCCGGACAGAGCATCT+AGG 0.503175 8.4:+76757832 None:intergenic
GTACTTCTCCCTTTGGTCCA+AGG 0.515790 8.4:+76757101 None:intergenic
AGCTCCTAGATGCTCTGTCC+GGG 0.517194 8.4:-76757836 MS.gene36932:CDS
CATCTCAGTCAAATGTAAGT+TGG 0.521303 8.4:+76757031 None:intergenic
CCCACCTACCTTGAAAAGGC+TGG 0.525727 8.4:-76758042 MS.gene36932:CDS
TTTGCTGACAATGACAGTGG+TGG 0.530795 8.4:-76758014 MS.gene36932:CDS
TTGCTGACAATGACAGTGGT+GGG 0.531811 8.4:-76758013 MS.gene36932:CDS
GTGTTTAAAACATCATGGAA+TGG 0.533456 8.4:+76757936 None:intergenic
AAAATTATCAAATGTGTCAA+GGG 0.548170 8.4:-76757067 MS.gene36932:CDS
GACAATGAAACCAAACGACA+TGG 0.562304 8.4:+76757869 None:intergenic
GGCGCGTTAATTTCAAGTGA+AGG 0.565512 8.4:+76757990 None:intergenic
TTTAGAGCTCATGCTGACCT+GGG 0.566033 8.4:-76757556 MS.gene36932:CDS
GCATCTAGGAGCTTGAGTAA+TGG 0.570363 8.4:+76757846 None:intergenic
TCTCAAAATTCAGATCTACA+AGG 0.571443 8.4:-76757481 MS.gene36932:intron
ATGAGACAATTAGGAACACT+TGG 0.572179 8.4:+76757243 None:intergenic
GTGGACAAACAGTGGCTGCT+TGG 0.586558 8.4:-76757624 MS.gene36932:intron
CAAACGACATGGGATAGAGA+TGG 0.595053 8.4:+76757880 None:intergenic
CAATTAGGAACACTTGGCTG+TGG 0.595075 8.4:+76757249 None:intergenic
GGAGCCCATCCTAAAATTGG+TGG 0.598007 8.4:+76757270 None:intergenic
ATGTTAAGGTACTCAAGATG+AGG 0.643237 8.4:+76757969 None:intergenic
ACAATGAAACCAAACGACAT+GGG 0.644148 8.4:+76757870 None:intergenic
TTCTTTGCTGACAATGACAG+TGG 0.650414 8.4:-76758017 MS.gene36932:CDS
TAGTGAATTGCAGTTAACCC+AGG 0.650768 8.4:+76757539 None:intergenic
CACGCAGAACTTGCACAATG+TGG 0.672729 8.4:-76757916 MS.gene36932:CDS
TGTAAGTTGGCACATTCCAG+AGG 0.679400 8.4:+76757044 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATCATGATTTATTTATTTA+TGG - chr8.4:76757411-76757430 MS.gene36932:intron 10.0%
!! AAAACCTTTAAATTGAATAA+AGG + chr8.4:76757888-76757907 None:intergenic 15.0%
!! TTAATCATGTATATATTAAG+TGG + chr8.4:76757748-76757767 None:intergenic 15.0%
!!! GTTTAATTTGAAGTTTAATT+CGG - chr8.4:76757639-76757658 MS.gene36932:intron 15.0%
!! AAAAATTATCAAATGTGTCA+AGG - chr8.4:76758026-76758045 MS.gene36932:CDS 20.0%
!! AAAATTATCAAATGTGTCAA+GGG - chr8.4:76758027-76758046 MS.gene36932:CDS 20.0%
!!! ATTCAATTTAAAGGTTTTCA+AGG - chr8.4:76757890-76757909 MS.gene36932:CDS 20.0%
! ATTCTTGAAAAAGCAATTCA+CGG + chr8.4:76757502-76757521 None:intergenic 25.0%
! CTGACCTTTATTCAATTTAA+AGG - chr8.4:76757881-76757900 MS.gene36932:CDS 25.0%
! CTTTAAATTGAATAAAGGTC+AGG + chr8.4:76757883-76757902 None:intergenic 25.0%
!! TGTTTAAAACATCATGGAAT+GGG + chr8.4:76757160-76757179 None:intergenic 25.0%
!!! GATTATTTCTGATATTTCCT+TGG - chr8.4:76757976-76757995 MS.gene36932:CDS 25.0%
!!! GTTTTGTTCTAATTACTACT+TGG - chr8.4:76757443-76757462 MS.gene36932:intron 25.0%
CAAAACTTAACCTTAGTTGT+TGG + chr8.4:76757308-76757327 None:intergenic 30.0%
TCTCAAAATTCAGATCTACA+AGG - chr8.4:76757613-76757632 MS.gene36932:CDS 30.0%
TTCTTGAAAAAGCAATTCAC+GGG + chr8.4:76757501-76757520 None:intergenic 30.0%
! GTGTTTAAAACATCATGGAA+TGG + chr8.4:76757161-76757180 None:intergenic 30.0%
!! CATGTATTTTTATTGCCTAC+AGG - chr8.4:76757796-76757815 MS.gene36932:intron 30.0%
!! CTAATTACTACTTGGTAATG+TGG - chr8.4:76757451-76757470 MS.gene36932:intron 30.0%
ACAATGAAACCAAACGACAT+GGG + chr8.4:76757227-76757246 None:intergenic 35.0%
ATGAGACAATTAGGAACACT+TGG + chr8.4:76757854-76757873 None:intergenic 35.0%
CTTAACCAGCTCTTATGAAA+TGG - chr8.4:76757683-76757702 MS.gene36932:intron 35.0%
GTAATCCATTTCATAAGAGC+TGG + chr8.4:76757691-76757710 None:intergenic 35.0%
TCAACAAATGACATCTCATC+TGG + chr8.4:76757920-76757939 None:intergenic 35.0%
TCTTGAAAAAGCAATTCACG+GGG + chr8.4:76757500-76757519 None:intergenic 35.0%
TGATATTTCCTTGGACCAAA+GGG - chr8.4:76757985-76758004 MS.gene36932:CDS 35.0%
TTTGAGTAGTCCAACAACTA+AGG - chr8.4:76757295-76757314 MS.gene36932:intron 35.0%
! ATGTTAAGGTACTCAAGATG+AGG + chr8.4:76757128-76757147 None:intergenic 35.0%
! CAAAGTTAGATGTTTTGTCC+CGG + chr8.4:76757279-76757298 None:intergenic 35.0%
! GTTGAGCATGTTTTGCAAAA+AGG - chr8.4:76757935-76757954 MS.gene36932:CDS 35.0%
! TCTGCGTGTTTAAAACATCA+TGG + chr8.4:76757166-76757185 None:intergenic 35.0%
!! ATTTTGAGAACTTGAAGCAC+AGG + chr8.4:76757602-76757621 None:intergenic 35.0%
AAACATCATGGAATGGGCAT+TGG + chr8.4:76757154-76757173 None:intergenic 40.0%
AACATCATGGAATGGGCATT+GGG + chr8.4:76757153-76757172 None:intergenic 40.0%
AGGTGCGATATGAGACAATT+AGG + chr8.4:76757863-76757882 None:intergenic 40.0%
CATCTAGGAGCTTGAGTAAT+GGG + chr8.4:76757250-76757269 None:intergenic 40.0%
CTGATATTTCCTTGGACCAA+AGG - chr8.4:76757984-76758003 MS.gene36932:CDS 40.0%
GACAATGAAACCAAACGACA+TGG + chr8.4:76757228-76757247 None:intergenic 40.0%
TAGTGAATTGCAGTTAACCC+AGG + chr8.4:76757558-76757577 None:intergenic 40.0%
TTCTTTGCTGACAATGACAG+TGG - chr8.4:76757077-76757096 MS.gene36932:CDS 40.0%
! AAAGAAGTCCAGCCTTTTCA+AGG + chr8.4:76757063-76757082 None:intergenic 40.0%
!! ATGGGCATTGGGTAATGTTA+AGG + chr8.4:76757142-76757161 None:intergenic 40.0%
!! TTGGTAATGTGGACAAACAG+TGG - chr8.4:76757462-76757481 MS.gene36932:intron 40.0%
ACATCCCACCTACCTTGAAA+AGG - chr8.4:76757048-76757067 MS.gene36932:CDS 45.0%
CAAACGACATGGGATAGAGA+TGG + chr8.4:76757217-76757236 None:intergenic 45.0%
CAATTAGGAACACTTGGCTG+TGG + chr8.4:76757848-76757867 None:intergenic 45.0%
CATCTCTATCCCATGTCGTT+TGG - chr8.4:76757215-76757234 MS.gene36932:CDS 45.0%
GAATGTCGTACTTCTCCCTT+TGG + chr8.4:76758003-76758022 None:intergenic 45.0%
GCATCTAGGAGCTTGAGTAA+TGG + chr8.4:76757251-76757270 None:intergenic 45.0%
TGTGGAGCCCATCCTAAAAT+TGG + chr8.4:76757830-76757849 None:intergenic 45.0%
TTGCTGACAATGACAGTGGT+GGG - chr8.4:76757081-76757100 MS.gene36932:CDS 45.0%
TTTGCTGACAATGACAGTGG+TGG - chr8.4:76757080-76757099 MS.gene36932:CDS 45.0%
! ATTTAGAGCTCATGCTGACC+TGG - chr8.4:76757537-76757556 MS.gene36932:CDS 45.0%
! GGCGCGTTAATTTCAAGTGA+AGG + chr8.4:76757107-76757126 None:intergenic 45.0%
! TGTAAGTTGGCACATTCCAG+AGG + chr8.4:76758053-76758072 None:intergenic 45.0%
! TTTAGAGCTCATGCTGACCT+GGG - chr8.4:76757538-76757557 MS.gene36932:CDS 45.0%
!! AAGTCCAGCCTTTTCAAGGT+AGG + chr8.4:76757059-76757078 None:intergenic 45.0%
!! AGCAGCCACCAATTTTAGGA+TGG - chr8.4:76757819-76757838 MS.gene36932:CDS 45.0%
!!! GCAGCCACCAATTTTAGGAT+GGG - chr8.4:76757820-76757839 MS.gene36932:CDS 45.0%
AAGCTCCTAGATGCTCTGTC+CGG - chr8.4:76757257-76757276 MS.gene36932:CDS 50.0%
CACGCAGAACTTGCACAATG+TGG - chr8.4:76757178-76757197 MS.gene36932:CDS 50.0%
GGAGCCCATCCTAAAATTGG+TGG + chr8.4:76757827-76757846 None:intergenic 50.0%
GTACTTCTCCCTTTGGTCCA+AGG + chr8.4:76757996-76758015 None:intergenic 50.0%
TCAAATGTGTCAAGGGCCTC+TGG - chr8.4:76758034-76758053 MS.gene36932:CDS 50.0%
! AAATTGGTGGCTGCTCCTGT+AGG + chr8.4:76757814-76757833 None:intergenic 50.0%
! CAGGAGCAGCCACCAATTTT+AGG - chr8.4:76757815-76757834 MS.gene36932:CDS 50.0%
!! CCAGCCTTTTCAAGGTAGGT+GGG + chr8.4:76757055-76757074 None:intergenic 50.0%
!! TCCAGCCTTTTCAAGGTAGG+TGG + chr8.4:76757056-76757075 None:intergenic 50.0%
AGCTCCTAGATGCTCTGTCC+GGG - chr8.4:76757258-76757277 MS.gene36932:CDS 55.0%
CCCACCTACCTTGAAAAGGC+TGG - chr8.4:76757052-76757071 MS.gene36932:CDS 55.0%
GTGGACAAACAGTGGCTGCT+TGG - chr8.4:76757470-76757489 MS.gene36932:intron 55.0%
! TTGTCCCGGACAGAGCATCT+AGG + chr8.4:76757265-76757284 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 76757035 76758081 76757035 ID=MS.gene36932
chr8.4 mRNA 76757035 76758081 76757035 ID=MS.gene36932.t1;Parent=MS.gene36932
chr8.4 exon 76757800 76758081 76757800 ID=MS.gene36932.t1.exon1;Parent=MS.gene36932.t1
chr8.4 CDS 76757800 76758081 76757800 ID=cds.MS.gene36932.t1;Parent=MS.gene36932.t1
chr8.4 exon 76757482 76757634 76757482 ID=MS.gene36932.t1.exon2;Parent=MS.gene36932.t1
chr8.4 CDS 76757482 76757634 76757482 ID=cds.MS.gene36932.t1;Parent=MS.gene36932.t1
chr8.4 exon 76757035 76757298 76757035 ID=MS.gene36932.t1.exon3;Parent=MS.gene36932.t1
chr8.4 CDS 76757035 76757298 76757035 ID=cds.MS.gene36932.t1;Parent=MS.gene36932.t1
Gene Sequence

>MS.gene36932

ATGGACAAAATTTACATCCCACCTACCTTGAAAAGGCTGGACTTCTTTGCTGACAATGACAGTGGTGGGCCTTCACTTGAAATTAACGCGCCTCATCTTGAGTACCTTAACATTACCCAATGCCCATTCCATGATGTTTTAAACACGCAGAACTTGCACAATGTGGTAGAAGCAAGTCTCCATCTCTATCCCATGTCGTTTGGTTTCATTGTCCCATTACTCAAGCTCCTAGATGCTCTGTCCGGGACAAAACATCTAACTTTGAGTAGTCCAACAACTAAGGTTAAGTTTTGTTTTAGTTTTTTAATGTTTACTCGTCGTTTATATAGAGAGTAAGTTAGTAACTAGCTAACTAATGACAAATTATATAACTAATAATCATGATTTATTTATTTATGGATAGATATAGTTTTGTTCTAATTACTACTTGGTAATGTGGACAAACAGTGGCTGCTTGGTGAACCCCGTGAATTGCTTTTTCAAGAATTTCGCTATTTGCTTCATTTAGAGCTCATGCTGACCTGGGTTAACTGCAATTCACTACTTTGCTTGCTTCAAAAATGTCCTGTGCTTCAAGTTCTCAAAATTCAGATCTACAAGGTTTGTTTAATTTGAAGTTTAATTCGGTCTGTATAACTTTAATGAAAACTTAACCAGCTCTTATGAAATGGATTACACAAATTAGTAGTTGCATCTTATTGTACAGTACACCACTTAATATATACATGATTAATTCATTACTACGAATATTGCATCTTATTCATGTATTTTTATTGCCTACAGGAGCAGCCACCAATTTTAGGATGGGCTCCACAGCCAAGTGTTCCTAATTGTCTCATATCGCACCTGACCTTTATTCAATTTAAAGGTTTTCAAGGATTTCCAGATGAGATGTCATTTGTTGAGCATGTTTTGCAAAAAGGACTTGTTTTGAAAACATTGATTATTTCTGATATTTCCTTGGACCAAAGGGAGAAGTACGACATTCTCAAAAAATTATCAAATGTGTCAAGGGCCTCTGGAATGTGCCAACTTACATTTGACTGA
Protein sequence

>MS.gene36932.t1

MDKIYIPPTLKRLDFFADNDSGGPSLEINAPHLEYLNITQCPFHDVLNTQNLHNVVEASLHLYPMSFGFIVPLLKLLDALSGTKHLTLSSPTTKWLLGEPRELLFQEFRYLLHLELMLTWVNCNSLLCLLQKCPVLQVLKIQIYKEQPPILGWAPQPSVPNCLISHLTFIQFKGFQGFPDEMSFVEHVLQKGLVLKTLIISDISLDQREKYDILKKLSNVSRASGMCQLTFD