AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene40577

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene40577.t1 MTR_1g070355 45.631 206 98 1 39 230 19 224 5.61e-56 187
MS.gene40577.t1 MTR_6g022080 34.911 169 110 0 62 230 67 235 1.18e-33 121
MS.gene40577.t1 MTR_5g076070 34.211 190 118 2 42 230 20 203 5.06e-30 113
MS.gene40577.t1 MTR_0060s0090 56.322 87 38 0 79 165 55 141 2.97e-29 107
MS.gene40577.t1 MTR_6g463250 39.873 158 61 3 8 165 35 158 8.91e-29 107
MS.gene40577.t1 MTR_2g101460 36.709 158 93 1 35 185 3 160 2.19e-25 99.4
MS.gene40577.t1 MTR_2g101460 41.935 124 72 0 62 185 27 150 9.42e-25 97.4
MS.gene40577.t1 MTR_4g050510 36.029 136 72 2 82 217 81 201 7.88e-23 92.4
MS.gene40577.t1 MTR_6g053140 33.735 166 86 3 8 173 48 189 1.35e-22 92.0
MS.gene40577.t1 MTR_3g448650 35.878 131 77 1 35 158 30 160 1.56e-20 85.5
MS.gene40577.t1 MTR_7g028855 29.302 215 146 1 9 223 55 263 6.82e-20 87.8
MS.gene40577.t1 MTR_1g052260 36.893 103 65 0 60 162 56 158 6.06e-18 78.2
MS.gene40577.t1 MTR_7g446520 29.375 160 95 1 71 230 79 220 1.78e-17 80.1
MS.gene40577.t1 MTR_8g066350 26.667 165 99 3 22 185 23 166 5.64e-15 70.5
MS.gene40577.t1 MTR_3g450850 31.496 127 75 5 86 202 53 177 5.38e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene40577.t1 AT1G10240 34.356 163 86 5 72 219 34 190 2.11e-14 72.4
MS.gene40577.t1 AT1G10240 34.356 163 86 5 72 219 34 190 2.11e-14 72.4
MS.gene40577.t1 AT5G28530 31.707 123 81 2 86 206 61 182 1.54e-13 69.7
MS.gene40577.t1 AT5G28530 31.707 123 81 2 86 206 61 182 1.59e-13 69.7
MS.gene40577.t1 AT5G28530 30.534 131 88 2 86 214 61 190 1.67e-13 69.7
MS.gene40577.t1 AT5G28530 30.534 131 88 2 86 214 61 190 1.76e-13 69.7
MS.gene40577.t1 AT5G28530 30.534 131 88 2 86 214 61 190 1.76e-13 69.7
MS.gene40577.t1 AT4G38180 30.573 157 106 3 76 230 69 224 6.70e-11 62.0

Find 54 sgRNAs with CRISPR-Local

Find 66 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGGAGGCAATCTATGTTTAT+TGG 0.295916 2.1:+22751251 None:intergenic
TACCAGTTCTACTACTGGTT+TGG 0.296108 2.1:-22751149 MS.gene40577:CDS
ATATCAATCTTCAAAATATC+AGG 0.302921 2.1:+22751230 None:intergenic
GCATAGAAAATTGTCAAAAT+TGG 0.303743 2.1:-22750844 MS.gene40577:CDS
GAATGAGTTGGACGAAGAAT+TGG 0.337521 2.1:-22751324 MS.gene40577:CDS
GGTGCAATGGCAAATGCTTC+TGG 0.358193 2.1:-22750765 MS.gene40577:CDS
ATTGGTTCCAAATCACCTTC+GGG 0.363893 2.1:+22751269 None:intergenic
TATTGGTTCCAAATCACCTT+CGG 0.372238 2.1:+22751268 None:intergenic
GAAGGTTTAAGCCATGGAAT+TGG 0.373619 2.1:-22751302 MS.gene40577:CDS
ATTGCACCGTACATCTGATA+TGG 0.395766 2.1:+22750780 None:intergenic
ACCAGTTCTACTACTGGTTT+GGG 0.402961 2.1:-22751148 MS.gene40577:CDS
AATTGGATGTACAGGATATT+CGG 0.403668 2.1:-22750827 MS.gene40577:CDS
TACTGGTTTGGGAGAAGAAA+AGG 0.407808 2.1:-22751137 MS.gene40577:CDS
ATTGTCAAAATTGGATGTAC+AGG 0.424754 2.1:-22750835 MS.gene40577:CDS
TTCATAAGAGTCTGATGATA+AGG 0.425264 2.1:-22751106 MS.gene40577:CDS
GTGAACACACATAGGTTTGT+TGG 0.440149 2.1:+22751063 None:intergenic
TCCCAAACCAGTAGTAGAAC+TGG 0.465930 2.1:+22751147 None:intergenic
CCAACGAATCATATGATGAT+TGG 0.467021 2.1:+22751474 None:intergenic
GGGAGTTGTTTCCAATTCCA+TGG 0.469694 2.1:+22751291 None:intergenic
CTGCCTACCAGTTCTACTAC+TGG 0.479288 2.1:-22751154 MS.gene40577:CDS
GTGCATTAACACCCGAGAAA+AGG 0.491667 2.1:-22751019 MS.gene40577:CDS
ACCTATGTGTGTTCACGTGC+AGG 0.495433 2.1:-22751056 MS.gene40577:CDS
GAAGTTGAGAGGTACAGCTT+TGG 0.520939 2.1:-22751188 MS.gene40577:CDS
AACTGTGACATACCATCGCC+TGG 0.526121 2.1:+22750926 None:intergenic
CCAATCATCATATGATTCGT+TGG 0.527741 2.1:-22751474 MS.gene40577:intron
ATGGAAGGCGGTTCACAAGT+AGG 0.555935 2.1:-22751518 MS.gene40577:CDS
GAATTGGAAGGTTTAAGCCA+TGG 0.558266 2.1:-22751308 MS.gene40577:CDS
CACAACCATGTGCTGTTGGA+TGG 0.560550 2.1:-22750891 MS.gene40577:CDS
TCTGATGATAAGGAATCGTA+CGG 0.560905 2.1:-22751096 MS.gene40577:CDS
ACTCATTCTCTCCCGCATCA+TGG 0.574153 2.1:+22751339 None:intergenic
ATATCAGATGTACGGTGCAA+TGG 0.583654 2.1:-22750778 MS.gene40577:CDS
TATCAATCTTCAAAATATCA+GGG 0.588637 2.1:+22751231 None:intergenic
GTACCTCTCAACTTCTTCGA+AGG 0.600209 2.1:+22751196 None:intergenic
ATAAGACCATATCAGATGTA+CGG 0.603816 2.1:-22750786 MS.gene40577:CDS
TGATGCGGGAGAGAATGAGT+TGG 0.604824 2.1:-22751336 MS.gene40577:CDS
TGGTCACAACCATGTGCTGT+TGG 0.609196 2.1:-22750895 MS.gene40577:CDS
TGTAGTTGTTGAACAATGGA+AGG 0.613902 2.1:-22751533 None:intergenic
CTGATGATAAGGAATCGTAC+GGG 0.620525 2.1:-22751095 MS.gene40577:CDS
TCATTCCATCCAACAGCACA+TGG 0.625026 2.1:+22750886 None:intergenic
TTGGTTCCAAATCACCTTCG+GGG 0.629437 2.1:+22751270 None:intergenic
TTTCCTTCGAAGAAGTTGAG+AGG 0.631586 2.1:-22751199 MS.gene40577:CDS
TCCTGCACGTGAACACACAT+AGG 0.636134 2.1:+22751055 None:intergenic
TGGTTCCAAATCACCTTCGG+GGG 0.641189 2.1:+22751271 None:intergenic
TCGACATTCACACCAGGCGA+TGG 0.642528 2.1:-22750938 MS.gene40577:CDS
GAGTTGGACGAAGAATTGGA+AGG 0.645890 2.1:-22751320 MS.gene40577:CDS
ATTCGGAGTAATAACAACGT+TGG 0.670677 2.1:-22750810 MS.gene40577:CDS
TACATGTCGACATTCACACC+AGG 0.674089 2.1:-22750944 MS.gene40577:CDS
GCAATGGCAAATGCTTCTGG+TGG 0.675264 2.1:-22750762 MS.gene40577:CDS
AAACCAGTAGTAGAACTGGT+AGG 0.688245 2.1:+22751151 None:intergenic
CTGTTGGATGGAATGATGTG+CGG 0.697681 2.1:-22750879 MS.gene40577:CDS
AGTTGTTGAACAATGGAAGG+CGG 0.702252 2.1:-22751530 None:intergenic
GCTAGAAATGAAACAAGATG+CGG 0.713432 2.1:-22750987 MS.gene40577:CDS
CAATCTTCAAAATATCAGGG+AGG 0.740535 2.1:+22751234 None:intergenic
AGGAAACAATCATTCACACG+CGG 0.754929 2.1:-22751498 MS.gene40577:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATATCAATCTTCAAAATATC+AGG + chr2.1:22751043-22751062 None:intergenic 20.0%
!! TATCAATCTTCAAAATATCA+GGG + chr2.1:22751042-22751061 None:intergenic 20.0%
!!! CACACAAATTTTTTTGTTAT+TGG + chr2.1:22750848-22750867 None:intergenic 20.0%
! GCATAGAAAATTGTCAAAAT+TGG - chr2.1:22751426-22751445 MS.gene40577:intron 25.0%
!! TATGTCACAGTTTTTGAATT+TGG - chr2.1:22751355-22751374 MS.gene40577:CDS 25.0%
!!! GTTATTGGAAAATTTGCTAA+TGG + chr2.1:22750833-22750852 None:intergenic 25.0%
AATTGGATGTACAGGATATT+CGG - chr2.1:22751443-22751462 MS.gene40577:intron 30.0%
ATAAGACCATATCAGATGTA+CGG - chr2.1:22751484-22751503 MS.gene40577:CDS 30.0%
ATTGTCAAAATTGGATGTAC+AGG - chr2.1:22751435-22751454 MS.gene40577:intron 30.0%
TTCATAAGAGTCTGATGATA+AGG - chr2.1:22751164-22751183 MS.gene40577:CDS 30.0%
ATTCGGAGTAATAACAACGT+TGG - chr2.1:22751460-22751479 MS.gene40577:intron 35.0%
CAATCTTCAAAATATCAGGG+AGG + chr2.1:22751039-22751058 None:intergenic 35.0%
CATCATATGATTCGTTGGTA+AGG - chr2.1:22750801-22750820 MS.gene40577:CDS 35.0%
CCAACGAATCATATGATGAT+TGG + chr2.1:22750799-22750818 None:intergenic 35.0%
CCAATCATCATATGATTCGT+TGG - chr2.1:22750796-22750815 MS.gene40577:CDS 35.0%
GCTAGAAATGAAACAAGATG+CGG - chr2.1:22751283-22751302 MS.gene40577:CDS 35.0%
TCTGATGATAAGGAATCGTA+CGG - chr2.1:22751174-22751193 MS.gene40577:CDS 35.0%
!! TATTGGTTCCAAATCACCTT+CGG + chr2.1:22751005-22751024 None:intergenic 35.0%
AAAACATCGTCACACTCTTG+TGG + chr2.1:22750905-22750924 None:intergenic 40.0%
AAACATCGTCACACTCTTGT+GGG + chr2.1:22750904-22750923 None:intergenic 40.0%
AAACCAGTAGTAGAACTGGT+AGG + chr2.1:22751122-22751141 None:intergenic 40.0%
AGGAAACAATCATTCACACG+CGG - chr2.1:22750772-22750791 MS.gene40577:CDS 40.0%
ATATCAGATGTACGGTGCAA+TGG - chr2.1:22751492-22751511 MS.gene40577:CDS 40.0%
ATTGCACCGTACATCTGATA+TGG + chr2.1:22751493-22751512 None:intergenic 40.0%
CTGATGATAAGGAATCGTAC+GGG - chr2.1:22751175-22751194 MS.gene40577:CDS 40.0%
GAAGGTTTAAGCCATGGAAT+TGG - chr2.1:22750968-22750987 MS.gene40577:CDS 40.0%
GAATTGGAAGGTTTAAGCCA+TGG - chr2.1:22750962-22750981 MS.gene40577:CDS 40.0%
GGGAGGCAATCTATGTTTAT+TGG + chr2.1:22751022-22751041 None:intergenic 40.0%
GTGAACACACATAGGTTTGT+TGG + chr2.1:22751210-22751229 None:intergenic 40.0%
TTTCCTTCGAAGAAGTTGAG+AGG - chr2.1:22751071-22751090 MS.gene40577:CDS 40.0%
! AGCACGACATTTCCTTTTCT+CGG + chr2.1:22751266-22751285 None:intergenic 40.0%
! ATTGGTTCCAAATCACCTTC+GGG + chr2.1:22751004-22751023 None:intergenic 40.0%
! GAATGAGTTGGACGAAGAAT+TGG - chr2.1:22750946-22750965 MS.gene40577:CDS 40.0%
! TACCAGTTCTACTACTGGTT+TGG - chr2.1:22751121-22751140 MS.gene40577:CDS 40.0%
!! ACCAGTTCTACTACTGGTTT+GGG - chr2.1:22751122-22751141 MS.gene40577:CDS 40.0%
!! TACTGGTTTGGGAGAAGAAA+AGG - chr2.1:22751133-22751152 MS.gene40577:CDS 40.0%
!! TGTTTTAAGCAGCCATGATG+CGG - chr2.1:22750919-22750938 MS.gene40577:CDS 40.0%
AACATCGTCACACTCTTGTG+GGG + chr2.1:22750903-22750922 None:intergenic 45.0%
CTGTTGGATGGAATGATGTG+CGG - chr2.1:22751391-22751410 MS.gene40577:intron 45.0%
GAGTTGGACGAAGAATTGGA+AGG - chr2.1:22750950-22750969 MS.gene40577:CDS 45.0%
GTACCTCTCAACTTCTTCGA+AGG + chr2.1:22751077-22751096 None:intergenic 45.0%
GTGCATTAACACCCGAGAAA+AGG - chr2.1:22751251-22751270 MS.gene40577:CDS 45.0%
TACATGTCGACATTCACACC+AGG - chr2.1:22751326-22751345 MS.gene40577:CDS 45.0%
TCATTCCATCCAACAGCACA+TGG + chr2.1:22751387-22751406 None:intergenic 45.0%
TCCCAAACCAGTAGTAGAAC+TGG + chr2.1:22751126-22751145 None:intergenic 45.0%
TTGGTTCCAAATCACCTTCG+GGG + chr2.1:22751003-22751022 None:intergenic 45.0%
TTGTGTGTGTTCTGCAATCG+TGG - chr2.1:22750861-22750880 MS.gene40577:CDS 45.0%
! GAAGTTGAGAGGTACAGCTT+TGG - chr2.1:22751082-22751101 MS.gene40577:CDS 45.0%
! GCACGACATTTCCTTTTCTC+GGG + chr2.1:22751265-22751284 None:intergenic 45.0%
! GGGAGTTGTTTCCAATTCCA+TGG + chr2.1:22750982-22751001 None:intergenic 45.0%
!! GTTTTAAGCAGCCATGATGC+GGG - chr2.1:22750920-22750939 MS.gene40577:CDS 45.0%
AACTGTGACATACCATCGCC+TGG + chr2.1:22751347-22751366 None:intergenic 50.0%
ACCTATGTGTGTTCACGTGC+AGG - chr2.1:22751214-22751233 MS.gene40577:CDS 50.0%
ACTCATTCTCTCCCGCATCA+TGG + chr2.1:22750934-22750953 None:intergenic 50.0%
ATGGAAGGCGGTTCACAAGT+AGG - chr2.1:22750752-22750771 MS.gene40577:CDS 50.0%
ATTGGAAACAACTCCCCCGA+AGG - chr2.1:22750986-22751005 MS.gene40577:CDS 50.0%
CTGCCTACCAGTTCTACTAC+TGG - chr2.1:22751116-22751135 MS.gene40577:CDS 50.0%
GCAATGGCAAATGCTTCTGG+TGG - chr2.1:22751508-22751527 MS.gene40577:CDS 50.0%
GGTGCAATGGCAAATGCTTC+TGG - chr2.1:22751505-22751524 MS.gene40577:CDS 50.0%
TCCTGCACGTGAACACACAT+AGG + chr2.1:22751218-22751237 None:intergenic 50.0%
TGATGCGGGAGAGAATGAGT+TGG - chr2.1:22750934-22750953 MS.gene40577:CDS 50.0%
TGGTCACAACCATGTGCTGT+TGG - chr2.1:22751375-22751394 MS.gene40577:intron 50.0%
TGGTTCCAAATCACCTTCGG+GGG + chr2.1:22751002-22751021 None:intergenic 50.0%
! CACAACCATGTGCTGTTGGA+TGG - chr2.1:22751379-22751398 MS.gene40577:intron 50.0%
CAACTCCCCCGAAGGTGATT+TGG - chr2.1:22750994-22751013 MS.gene40577:CDS 55.0%
TCGACATTCACACCAGGCGA+TGG - chr2.1:22751332-22751351 MS.gene40577:CDS 55.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 22750752 22751540 22750752 ID=MS.gene40577
chr2.1 mRNA 22750752 22751540 22750752 ID=MS.gene40577.t1;Parent=MS.gene40577
chr2.1 exon 22751475 22751540 22751475 ID=MS.gene40577.t1.exon1;Parent=MS.gene40577.t1
chr2.1 CDS 22751475 22751540 22751475 ID=cds.MS.gene40577.t1;Parent=MS.gene40577.t1
chr2.1 exon 22750752 22751381 22750752 ID=MS.gene40577.t1.exon2;Parent=MS.gene40577.t1
chr2.1 CDS 22750752 22751381 22750752 ID=cds.MS.gene40577.t1;Parent=MS.gene40577.t1
Gene Sequence

>MS.gene40577

ATGGAAGGCGGTTCACAAGTAGGAAACAATCATTCACACGCGGACCAATCATCATATGATTCGTTGGTAAGGCTCAATCCATTAGCAAATTTTCCAATAACAAAAAAATTTGTGTGTGTTCTGCAATCGTGGTGATTGTGACTTTTTTCCCCACAAGAGTGTGACGATGTTTTAAGCAGCCATGATGCGGGAGAGAATGAGTTGGACGAAGAATTGGAAGGTTTAAGCCATGGAATTGGAAACAACTCCCCCGAAGGTGATTTGGAACCAATAAACATAGATTGCCTCCCTGATATTTTGAAGATTGATATGAACAACATTTCCTTCGAAGAAGTTGAGAGGTACAGCTTTGGTGACTTAGATGCTGCCTACCAGTTCTACTACTGGTTTGGGAGAAGAAAAGGATTCTCTATTCATAAGAGTCTGATGATAAGGAATCGTACGGGAGACATTTTCCAACAAACCTATGTGTGTTCACGTGCAGGATTTAGAGAAGATCGTGCATTAACACCCGAGAAAAGGAAATGTCGTGCTAGAAATGAAACAAGATGCGGATGTCAAGCAAACTTCAGAGTACATGTCGACATTCACACCAGGCGATGGTATGTCACAGTTTTTGAATTTGGTCACAACCATGTGCTGTTGGATGGAATGATGTGCGGTCTACTAGCAGCGCATAGAAAATTGTCAAAATTGGATGTACAGGATATTCGGAGTAATAACAACGTTGGTATAAGACCATATCAGATGTACGGTGCAATGGCAAATGCTTCTGGTGGTTTCCACTAG
Protein sequence

>MS.gene40577.t1

MEGGSQVGNNHSHADQSSYDSLCDDVLSSHDAGENELDEELEGLSHGIGNNSPEGDLEPINIDCLPDILKIDMNNISFEEVERYSFGDLDAAYQFYYWFGRRKGFSIHKSLMIRNRTGDIFQQTYVCSRAGFREDRALTPEKRKCRARNETRCGCQANFRVHVDIHTRRWYVTVFEFGHNHVLLDGMMCGLLAAHRKLSKLDVQDIRSNNNVGIRPYQMYGAMANASGGFH