AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene93121

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene93121.t1 MTR_1g114640 94.170 223 13 0 1 223 1 223 8.22e-156 431
MS.gene93121.t1 MTR_1g114640 92.121 165 13 0 1 165 1 165 4.31e-107 305
MS.gene93121.t1 MTR_1g033750 63.927 219 76 2 5 220 4 222 1.60e-95 278
MS.gene93121.t1 MTR_1g114690 55.263 228 83 3 1 220 1 217 6.09e-81 241
MS.gene93121.t1 MTR_1g114690 54.091 220 98 2 1 220 1 217 1.46e-78 235
MS.gene93121.t1 MTR_1g114750 53.363 223 98 4 1 220 1 220 2.89e-75 227
MS.gene93121.t1 MTR_1g114690 48.473 262 82 4 1 220 1 251 5.94e-74 224
MS.gene93121.t1 MTR_1g115130 64.189 148 53 0 73 220 46 193 5.32e-66 202
MS.gene93121.t1 MTR_6g077990 48.259 201 97 1 18 218 3 196 2.99e-60 188
MS.gene93121.t1 MTR_6g077990 57.792 154 65 0 65 218 42 195 4.95e-60 187
MS.gene93121.t1 MTR_8g100065 57.500 160 67 1 60 218 23 182 4.96e-59 184
MS.gene93121.t1 MTR_8g100065 57.500 160 67 1 60 218 45 204 1.23e-58 184
MS.gene93121.t1 MTR_1g114680 87.963 108 13 0 113 220 55 162 3.13e-58 182
MS.gene93121.t1 MTR_6g077990 58.904 146 60 0 73 218 8 153 4.06e-57 178
MS.gene93121.t1 MTR_1g114690 52.410 166 76 2 1 166 1 163 5.94e-50 162
MS.gene93121.t1 MTR_7g083570 36.313 179 114 0 40 218 96 274 1.60e-41 142
MS.gene93121.t1 MTR_3g100750 39.355 155 91 2 65 218 103 255 5.70e-39 135
MS.gene93121.t1 MTR_8g069110 36.813 182 102 3 48 218 88 267 1.93e-38 134
MS.gene93121.t1 MTR_6g077990 57.143 105 45 0 65 169 42 146 8.22e-37 126
MS.gene93121.t1 MTR_8g100065 57.009 107 45 1 60 165 23 129 3.43e-35 122
MS.gene93121.t1 MTR_8g100065 57.009 107 45 1 60 165 45 151 6.67e-35 122
MS.gene93121.t1 MTR_2g076350 36.364 176 111 1 46 220 52 227 1.19e-30 113
MS.gene93121.t1 MTR_5g015750 73.611 72 19 0 1 72 1 72 1.40e-29 107
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene93121.t1 AT5G23370 59.184 196 70 2 28 218 23 213 1.42e-76 230
MS.gene93121.t1 AT5G08350 55.610 205 81 3 19 218 13 212 2.16e-74 224
MS.gene93121.t1 AT5G23350 57.143 196 74 2 28 218 23 213 9.42e-73 220
MS.gene93121.t1 AT5G23360 55.497 191 77 2 28 218 23 205 4.30e-69 211
MS.gene93121.t1 AT4G01600 41.379 174 101 1 48 220 14 187 1.50e-42 142
MS.gene93121.t1 AT4G01600 41.379 174 101 1 48 220 53 226 3.55e-42 143
MS.gene93121.t1 AT5G13200 34.000 200 129 2 16 214 59 256 2.84e-41 142
MS.gene93121.t1 AT4G01600 39.891 183 107 2 41 220 39 221 9.22e-39 134
MS.gene93121.t1 AT1G28200 34.343 198 119 4 29 218 60 254 1.59e-37 132
MS.gene93121.t1 AT1G28200 34.343 198 119 4 29 218 60 254 1.59e-37 132
MS.gene93121.t1 AT2G22475 35.165 182 115 2 38 218 112 291 6.95e-37 131
MS.gene93121.t1 AT5G13200 32.000 125 85 0 42 166 84 208 1.68e-22 91.7
MS.gene93121.t1 AT4G40100 29.609 179 92 3 43 218 69 216 4.12e-21 88.2
MS.gene93121.t1 AT2G22475 32.143 112 76 0 38 149 112 223 4.25e-17 77.8

Find 39 sgRNAs with CRISPR-Local

Find 68 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGATAACAGATACAGTAAA+AGG 0.240338 1.1:-80513394 MS.gene93121:CDS
TTTCTTCAAGAGCTACTAAA+TGG 0.262025 1.1:-80513939 MS.gene93121:CDS
ACTCTACTCAATTCTCCTTT+TGG 0.282744 1.1:+80513166 None:intergenic
CTCTATCAGCTCAAGTTATC+TGG 0.303053 1.1:-80513913 MS.gene93121:CDS
ATTGAGTAGAGTTCGATATA+AGG 0.312499 1.1:-80513155 MS.gene93121:intron
CAGTATTTGCCAGTAGAATC+AGG 0.352707 1.1:+80513864 None:intergenic
TCCTCCAACCTGAAGAATTC+TGG 0.354329 1.1:+80513354 None:intergenic
GCTGGGAGCCAGAATTCTTC+AGG 0.362862 1.1:-80513362 MS.gene93121:CDS
TTATGGGTTTCTTTAATTAT+CGG 0.380305 1.1:-80512897 MS.gene93121:CDS
CTGGCTAAGATGAACATGTT+TGG 0.417230 1.1:-80513701 MS.gene93121:CDS
AGGTAAATTAAATTCAGTTC+TGG 0.426046 1.1:-80513720 MS.gene93121:CDS
AGTAAAAGGGCAATTGAGGC+TGG 0.429664 1.1:-80513380 MS.gene93121:CDS
GTCTATCACAAAATCAAAGA+AGG 0.465270 1.1:-80513838 MS.gene93121:CDS
ATCAGGCAAGTATCTCTTTG+AGG 0.466817 1.1:+80513881 None:intergenic
AGATACTTGCCTGATTCTAC+TGG 0.476216 1.1:-80513873 MS.gene93121:CDS
ATGAAGAGGAGGCCAGCTAT+AGG 0.476519 1.1:+80513241 None:intergenic
ATCAAGATCTCTTCCCCAAA+AGG 0.477640 1.1:-80513181 MS.gene93121:CDS
ATCAGCTCAAGTTATCTGGC+TGG 0.496115 1.1:-80513909 MS.gene93121:CDS
TAGTAGCTCTTGAAGAAATG+AGG 0.516240 1.1:+80513944 None:intergenic
GCCAGAATTCTTCAGGTTGG+AGG 0.528156 1.1:-80513355 MS.gene93121:CDS
ATACAGTAAAAGGGCAATTG+AGG 0.534906 1.1:-80513384 MS.gene93121:CDS
ACCACATCAGGTCCTATAGC+TGG 0.538413 1.1:-80513253 MS.gene93121:CDS
AGATAACAGATACAGTAAAA+GGG 0.539158 1.1:-80513393 MS.gene93121:CDS
TGTTACTTATCAACCACATC+AGG 0.547818 1.1:-80513265 MS.gene93121:CDS
GCACATGGCGTCCGAGAGCA+TGG 0.554650 1.1:-80513659 MS.gene93121:intron
TCAGCTCAAGTTATCTGGCT+GGG 0.557066 1.1:-80513908 MS.gene93121:CDS
GGAGCCAGAATTCTTCAGGT+TGG 0.558952 1.1:-80513358 MS.gene93121:CDS
AGCTTTAAGATATCTCCAGC+AGG 0.564241 1.1:-80512872 MS.gene93121:CDS
TCTATCACAAAATCAAAGAA+GGG 0.593364 1.1:-80513837 MS.gene93121:intron
AAGATTATATACCATGCTCT+CGG 0.593942 1.1:+80513648 None:intergenic
ATAGAAATAGTCACTGTGGA+TGG 0.601998 1.1:-80512934 MS.gene93121:CDS
GTAAAAGGGCAATTGAGGCT+GGG 0.608194 1.1:-80513379 MS.gene93121:CDS
CTTTGTGAGTGGATATGAAG+AGG 0.608902 1.1:+80513227 None:intergenic
AACATGTTTGGAAGAAAAGA+CGG 0.627231 1.1:-80513689 MS.gene93121:CDS
GCCAGCTATAGGACCTGATG+TGG 0.639099 1.1:+80513252 None:intergenic
AAAGACGGTGGTTTAGCACA+TGG 0.659022 1.1:-80513674 MS.gene93121:CDS
TGTGAGTGGATATGAAGAGG+AGG 0.670894 1.1:+80513230 None:intergenic
ATACATAGAAATAGTCACTG+TGG 0.703928 1.1:-80512938 MS.gene93121:CDS
ATGTTTGGAAGAAAAGACGG+TGG 0.712456 1.1:-80513686 MS.gene93121:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATTTAAATTAATTGATCA+TGG - chr1.1:80513041-80513060 MS.gene93121:intron 10.0%
!! CTGAAATAGTAAAAAAATTA+AGG + chr1.1:80513774-80513793 None:intergenic 15.0%
!!! AATATGCATTATACATATTT+TGG + chr1.1:80513306-80513325 None:intergenic 15.0%
!!! AATATGTATAATGCATATTT+TGG - chr1.1:80513307-80513326 MS.gene93121:CDS 15.0%
!!! CTTAATTTTTTTACTATTTC+AGG - chr1.1:80513772-80513791 MS.gene93121:intron 15.0%
!! TTATGGGTTTCTTTAATTAT+CGG - chr1.1:80513903-80513922 MS.gene93121:CDS 20.0%
!!! ATTTCTATGTATTTTTCTGA+AGG + chr1.1:80513854-80513873 None:intergenic 20.0%
! AAGATAACAGATACAGTAAA+AGG - chr1.1:80513406-80513425 MS.gene93121:CDS 25.0%
! AGATAACAGATACAGTAAAA+GGG - chr1.1:80513407-80513426 MS.gene93121:CDS 25.0%
! AGGTAAATTAAATTCAGTTC+TGG - chr1.1:80513080-80513099 MS.gene93121:intron 25.0%
! TCTATCACAAAATCAAAGAA+GGG - chr1.1:80512963-80512982 MS.gene93121:CDS 25.0%
!! TTAAGTTTAAGATTACATGC+TGG + chr1.1:80513751-80513770 None:intergenic 25.0%
!!! ATGGTCTTTTTTCTATTTTC+AGG - chr1.1:80513060-80513079 MS.gene93121:intron 25.0%
AACATGTTTGGAAGAAAAGA+CGG - chr1.1:80513111-80513130 MS.gene93121:intron 30.0%
AAGATTATATACCATGCTCT+CGG + chr1.1:80513155-80513174 None:intergenic 30.0%
ATACATAGAAATAGTCACTG+TGG - chr1.1:80513862-80513881 MS.gene93121:CDS 30.0%
ATTGAGTAGAGTTCGATATA+AGG - chr1.1:80513645-80513664 MS.gene93121:intron 30.0%
GTCTATCACAAAATCAAAGA+AGG - chr1.1:80512962-80512981 MS.gene93121:CDS 30.0%
TGCTTAAATGTGCATGTTAA+TGG - chr1.1:80513677-80513696 MS.gene93121:CDS 30.0%
TTTCTTCAAGAGCTACTAAA+TGG - chr1.1:80512861-80512880 MS.gene93121:CDS 30.0%
!!! AATGCATATTTTGGCATGAT+AGG - chr1.1:80513316-80513335 MS.gene93121:CDS 30.0%
!!! GTTTCTTCACATTTTGACTT+TGG + chr1.1:80513832-80513851 None:intergenic 30.0%
ACAAAAAGCAACTTTGTGAG+TGG + chr1.1:80513587-80513606 None:intergenic 35.0%
ATACAGTAAAAGGGCAATTG+AGG - chr1.1:80513416-80513435 MS.gene93121:intron 35.0%
ATAGAAATAGTCACTGTGGA+TGG - chr1.1:80513866-80513885 MS.gene93121:CDS 35.0%
TAGTAGCTCTTGAAGAAATG+AGG + chr1.1:80512859-80512878 None:intergenic 35.0%
TCACAAAATCAAAGAAGGGT+AGG - chr1.1:80512967-80512986 MS.gene93121:CDS 35.0%
! ACATGCTGAATCTTTTCATG+TGG + chr1.1:80513806-80513825 None:intergenic 35.0%
! ACTCTACTCAATTCTCCTTT+TGG + chr1.1:80513637-80513656 None:intergenic 35.0%
! CTCTACTCAATTCTCCTTTT+GGG + chr1.1:80513636-80513655 None:intergenic 35.0%
! GAGAGCATGGTATATAATCT+TGG - chr1.1:80513154-80513173 MS.gene93121:intron 35.0%
! TCTACTCAATTCTCCTTTTG+GGG + chr1.1:80513635-80513654 None:intergenic 35.0%
! TGGAAGCATGACAGAATATT+TGG + chr1.1:80513259-80513278 None:intergenic 35.0%
! TGTTACTTATCAACCACATC+AGG - chr1.1:80513535-80513554 MS.gene93121:intron 35.0%
!! TTCACTTTTGCTTAGTTGCA+AGG - chr1.1:80513195-80513214 MS.gene93121:CDS 35.0%
!!! GGTTTTGACTTCTGGTTTAT+GGG - chr1.1:80513887-80513906 MS.gene93121:CDS 35.0%
!!! TGGTTTTGACTTCTGGTTTA+TGG - chr1.1:80513886-80513905 MS.gene93121:CDS 35.0%
AGATACTTGCCTGATTCTAC+TGG - chr1.1:80512927-80512946 MS.gene93121:CDS 40.0%
ATCAAGATCTCTTCCCCAAA+AGG - chr1.1:80513619-80513638 MS.gene93121:intron 40.0%
ATCAGGCAAGTATCTCTTTG+AGG + chr1.1:80512922-80512941 None:intergenic 40.0%
ATGTTTGGAAGAAAAGACGG+TGG - chr1.1:80513114-80513133 MS.gene93121:intron 40.0%
CAGTATTTGCCAGTAGAATC+AGG + chr1.1:80512939-80512958 None:intergenic 40.0%
CTCTATCAGCTCAAGTTATC+TGG - chr1.1:80512887-80512906 MS.gene93121:CDS 40.0%
CTGGCTAAGATGAACATGTT+TGG - chr1.1:80513099-80513118 MS.gene93121:intron 40.0%
CTTCCAAAACTACTAGGCTT+AGG - chr1.1:80513273-80513292 MS.gene93121:CDS 40.0%
CTTTGTGAGTGGATATGAAG+AGG + chr1.1:80513576-80513595 None:intergenic 40.0%
GTCATGCTTCCAAAACTACT+AGG - chr1.1:80513267-80513286 MS.gene93121:CDS 40.0%
! TGACCTAAGCCTAGTAGTTT+TGG + chr1.1:80513279-80513298 None:intergenic 40.0%
! TTTTAACCTGCAGTGAGACT+TGG - chr1.1:80513379-80513398 MS.gene93121:CDS 40.0%
!! AGCTTTAAGATATCTCCAGC+AGG - chr1.1:80513928-80513947 MS.gene93121:CDS 40.0%
!! TTTTGGGGAAGAGATCTTGA+TGG + chr1.1:80513620-80513639 None:intergenic 40.0%
AAAGACGGTGGTTTAGCACA+TGG - chr1.1:80513126-80513145 MS.gene93121:intron 45.0%
AGTAAAAGGGCAATTGAGGC+TGG - chr1.1:80513420-80513439 MS.gene93121:intron 45.0%
ATCAGCTCAAGTTATCTGGC+TGG - chr1.1:80512891-80512910 MS.gene93121:CDS 45.0%
GTAAAAGGGCAATTGAGGCT+GGG - chr1.1:80513421-80513440 MS.gene93121:intron 45.0%
TCAGCTCAAGTTATCTGGCT+GGG - chr1.1:80512892-80512911 MS.gene93121:CDS 45.0%
TCCTCCAACCTGAAGAATTC+TGG + chr1.1:80513449-80513468 None:intergenic 45.0%
TGTGAGTGGATATGAAGAGG+AGG + chr1.1:80513573-80513592 None:intergenic 45.0%
TTTGTTCCAAGTCTCACTGC+AGG + chr1.1:80513388-80513407 None:intergenic 45.0%
!! TTTTCTGAAGGATAGCCTGC+TGG + chr1.1:80513946-80513965 None:intergenic 45.0%
!!! CTGTGGATGGTTTTGACTTC+TGG - chr1.1:80513879-80513898 MS.gene93121:CDS 45.0%
ACCACATCAGGTCCTATAGC+TGG - chr1.1:80513547-80513566 MS.gene93121:intron 50.0%
ATGAAGAGGAGGCCAGCTAT+AGG + chr1.1:80513562-80513581 None:intergenic 50.0%
GGAGCCAGAATTCTTCAGGT+TGG - chr1.1:80513442-80513461 MS.gene93121:intron 50.0%
!! GCCAGAATTCTTCAGGTTGG+AGG - chr1.1:80513445-80513464 MS.gene93121:intron 50.0%
GCCAGCTATAGGACCTGATG+TGG + chr1.1:80513551-80513570 None:intergenic 55.0%
GCTGGGAGCCAGAATTCTTC+AGG - chr1.1:80513438-80513457 MS.gene93121:intron 55.0%
GCACATGGCGTCCGAGAGCA+TGG - chr1.1:80513141-80513160 MS.gene93121:intron 65.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 80512849 80513973 80512849 ID=MS.gene93121
chr1.1 mRNA 80512849 80513973 80512849 ID=MS.gene93121.t1;Parent=MS.gene93121
chr1.1 exon 80513838 80513973 80513838 ID=MS.gene93121.t1.exon1;Parent=MS.gene93121.t1
chr1.1 CDS 80513838 80513973 80513838 ID=cds.MS.gene93121.t1;Parent=MS.gene93121.t1
chr1.1 exon 80513660 80513740 80513660 ID=MS.gene93121.t1.exon2;Parent=MS.gene93121.t1
chr1.1 CDS 80513660 80513740 80513660 ID=cds.MS.gene93121.t1;Parent=MS.gene93121.t1
chr1.1 exon 80513156 80513430 80513156 ID=MS.gene93121.t1.exon3;Parent=MS.gene93121.t1
chr1.1 CDS 80513156 80513430 80513156 ID=cds.MS.gene93121.t1;Parent=MS.gene93121.t1
chr1.1 exon 80512849 80513028 80512849 ID=MS.gene93121.t1.exon4;Parent=MS.gene93121.t1
chr1.1 CDS 80512849 80513028 80512849 ID=cds.MS.gene93121.t1;Parent=MS.gene93121.t1
Gene Sequence

>MS.gene93121

ATGAATACCTCATTTCTTCAAGAGCTACTAAATGGAATCTCTATCAGCTCAAGTTATCTGGCTGGGAAATCCTCAAAGAGATACTTGCCTGATTCTACTGGCAAATACTGCAAGTCTATCACAAAATCAAAGAAGGGTAGGACACATCACACATCTACATTAATAAATCTATATTTCATCAAATATTCTTTTAAATTTAAATTAATTGATCATGGTCTTTTTTCTATTTTCAGGTAAATTAAATTCAGTTCTGGCTAAGATGAACATGTTTGGAAGAAAAGACGGTGGTTTAGCACATGGCGTCCGAGAGCATGGTATATAATCTTGGAAGACTTATTTTCAATTTTTCACTTTTGCTTAGTTGCAAGGCATGAAACAAGCACTTAGTGATAGTACTTTATGAAAATCCAAATATTCTGTCATGCTTCCAAAACTACTAGGCTTAGGTCAATTTCCAAAATATGTATAATGCATATTTTGGCATGATAGGAAAATAGAGTGAAGTTGTAACTGATAGCTTGAAACTGTTATTTTAACCTGCAGTGAGACTTGGAACAAAGATAACAGATACAGTAAAAGGGCAATTGAGGCTGGGAGCCAGAATTCTTCAGGTTGGAGGAGTAGAAAAAGTGTTTATCGAACTTTTTAGTGTTAAAGAAGAAGAAAAGCTGTTGAAAGCATCACAGTGTTACTTATCAACCACATCAGGTCCTATAGCTGGCCTCCTCTTCATATCCACTCACAAAGTTGCTTTTTGTAGTGAGAAATCCATCAAGATCTCTTCCCCAAAAGGAGAATTGAGTAGAGTTCGATATAAGGTGATTTTTTTGCTTAAATGTGCATGTTAATGGTCTCTATCACTTTTATTTTCTCAACACTTAATTTGTTTACTATTTCAGCCAGCATGTAATCTTAAACTTAACCTTAATTTTTTTACTATTTCAGGTATCTATTCCACATGAAAAGATTCAGCATGTCAACCAAAGTCAAAATGTGAAGAAACCTTCAGAAAAATACATAGAAATAGTCACTGTGGATGGTTTTGACTTCTGGTTTATGGGTTTCTTTAATTATCGGAAAGCTTTAAGATATCTCCAGCAGGCTATCCTTCAGAAAAGCACATAG
Protein sequence

>MS.gene93121.t1

MNTSFLQELLNGISISSSYLAGKSSKRYLPDSTGKYCKSITKSKKGKLNSVLAKMNMFGRKDGGLAHGVREHVRLGTKITDTVKGQLRLGARILQVGGVEKVFIELFSVKEEEKLLKASQCYLSTTSGPIAGLLFISTHKVAFCSEKSIKISSPKGELSRVRYKVSIPHEKIQHVNQSQNVKKPSEKYIEIVTVDGFDFWFMGFFNYRKALRYLQQAILQKST