AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene94618

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene94618.t1 MTR_2g084495 91.949 236 13 1 3 238 1 230 1.63e-148 413
MS.gene94618.t1 MTR_2g084510 58.197 244 91 4 4 238 1 242 1.38e-93 275
MS.gene94618.t1 MTR_2g084525 60.816 245 85 3 3 238 1 243 3.86e-90 266
MS.gene94618.t1 MTR_2g060500 71.631 141 40 0 1 141 5 145 7.17e-70 211
MS.gene94618.t1 MTR_2g060540 70.922 141 41 0 1 141 5 145 2.44e-69 210
MS.gene94618.t1 MTR_1g062160 40.081 247 92 8 1 237 1 201 2.94e-49 160
MS.gene94618.t1 MTR_7g102790 40.741 243 97 11 1 237 1 202 1.16e-43 146
MS.gene94618.t1 MTR_5g030130 35.833 240 110 6 2 237 31 230 1.34e-40 139
MS.gene94618.t1 MTR_5g007230 35.169 236 108 5 2 237 17 207 5.28e-40 137
MS.gene94618.t1 MTR_5g030130 47.143 140 64 3 2 141 31 160 1.81e-39 135
MS.gene94618.t1 MTR_4g078170 34.335 233 115 6 5 237 14 208 3.92e-38 132
MS.gene94618.t1 MTR_8g066820 44.928 138 66 3 5 142 32 159 4.61e-36 127
MS.gene94618.t1 MTR_2g083720 53.279 122 19 2 1 122 1 84 8.18e-31 109
MS.gene94618.t1 MTR_2g083710 79.032 62 13 0 1 62 1 62 1.49e-29 105
MS.gene94618.t1 MTR_4g094680 30.901 233 140 8 8 238 24 237 1.32e-26 103
MS.gene94618.t1 MTR_2g055210 31.746 252 141 11 5 237 100 339 1.83e-26 105
MS.gene94618.t1 MTR_2g036170 30.638 235 136 9 8 237 39 251 1.58e-21 90.1
MS.gene94618.t1 MTR_4g116300 38.571 140 75 5 8 147 8 136 4.41e-20 86.3
MS.gene94618.t1 MTR_8g105930 29.139 151 84 6 8 142 15 158 1.40e-11 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.gene94618.t1 AT1G43000 37.083 240 119 7 2 237 12 223 8.02e-46 152
MS.gene94618.t1 AT1G43000 37.083 240 119 7 2 237 5 216 8.69e-46 152
MS.gene94618.t1 AT1G21000 35.366 246 138 8 2 237 9 243 3.75e-41 141
MS.gene94618.t1 AT1G21000 35.366 246 138 8 2 237 12 246 4.77e-41 141
MS.gene94618.t1 AT1G76590 35.565 239 134 7 7 237 19 245 1.67e-39 137
MS.gene94618.t1 AT4G17900 48.921 139 60 4 5 142 33 161 5.01e-38 132
MS.gene94618.t1 AT1G32700 47.857 140 63 3 8 147 14 143 1.04e-37 131
MS.gene94618.t1 AT4G17900 48.921 139 60 4 5 142 19 147 1.86e-37 130
MS.gene94618.t1 AT2G27930 46.043 139 69 3 8 143 6 141 1.01e-34 123
MS.gene94618.t1 AT2G27930 46.043 139 69 3 8 143 6 141 1.01e-34 123
MS.gene94618.t1 AT2G27930 45.985 137 68 3 8 141 6 139 9.82e-34 119
MS.gene94618.t1 AT2G27930 45.985 137 68 3 8 141 6 139 9.82e-34 119
MS.gene94618.t1 AT1G32700 48.673 113 49 2 35 147 1 104 3.61e-30 110
MS.gene94618.t1 AT5G46710 34.483 232 114 8 8 237 14 209 3.54e-29 109
MS.gene94618.t1 AT5G46710 34.483 232 114 8 8 237 30 225 7.80e-29 108
MS.gene94618.t1 AT5G46710 43.704 135 65 4 8 141 30 154 1.39e-27 103
MS.gene94618.t1 AT1G31040 29.362 235 148 8 8 237 21 242 1.33e-23 95.5
MS.gene94618.t1 AT3G60670 29.084 251 150 9 5 238 6 245 9.04e-22 90.9
MS.gene94618.t1 AT2G12646 38.571 140 75 5 8 147 8 136 2.80e-21 89.7
MS.gene94618.t1 AT2G12646 38.571 140 75 5 8 147 8 136 2.80e-21 89.7
MS.gene94618.t1 AT2G12646 38.571 140 75 5 8 147 5 133 3.07e-21 89.4
MS.gene94618.t1 AT2G01818 29.060 234 139 8 8 238 13 222 3.55e-17 77.8
MS.gene94618.t1 AT2G27930 45.349 86 42 2 61 143 61 144 6.11e-17 76.6
MS.gene94618.t1 AT2G27930 45.349 86 42 2 61 143 61 144 6.11e-17 76.6

Find 34 sgRNAs with CRISPR-Local

Find 67 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTCCCTTTCTTCTTGAATT+TGG 0.126179 2.4:-14942321 None:intergenic
TTTATGCAAGATCCACAAAA+TGG 0.291003 2.4:-14941316 None:intergenic
AATCGAAATTTACAAGCATT+TGG 0.312437 2.4:+14941578 MS.gene94618:CDS
TTCTTCGTAGGTTGGGAATA+AGG 0.331085 2.4:-14941663 None:intergenic
TACAAGCATTTGGATATTCT+AGG 0.347196 2.4:+14941588 MS.gene94618:CDS
AAGAAGACGATAGGTATAAT+TGG 0.364201 2.4:+14941681 MS.gene94618:CDS
AGTTGCTAATCACATAGGTT+TGG 0.394909 2.4:-14941614 None:intergenic
TGCAAAGGAGACAGAAGAAA+TGG 0.410636 2.4:+14942113 MS.gene94618:CDS
AGAAGAAATGGAAAGATTGT+TGG 0.417250 2.4:+14942125 MS.gene94618:CDS
TATCGTCTTCTTCGTAGGTT+GGG 0.419261 2.4:-14941670 None:intergenic
GCCAGAGAGCAAAAGTAATA+AGG 0.422528 2.4:-14941753 None:intergenic
CTTCTGTCTCCTTTGCACTT+AGG 0.432332 2.4:-14942107 None:intergenic
AAAGCCAAATTCAAGAAGAA+AGG 0.446839 2.4:+14942317 MS.gene94618:CDS
CTATCGTCTTCTTCGTAGGT+TGG 0.485528 2.4:-14941671 None:intergenic
ATATGTCAAAGGAATCTTGT+AGG 0.494888 2.4:+14941729 MS.gene94618:CDS
AAGCCAAATTCAAGAAGAAA+GGG 0.497702 2.4:+14942318 MS.gene94618:CDS
AGGATATGATGTTCGTGCCC+TGG 0.529076 2.4:+14941188 MS.gene94618:intron
TTTGAATGCATAAAGAAGGA+TGG 0.531033 2.4:+14942075 MS.gene94618:CDS
TGTAAAGTTGCTAATCACAT+AGG 0.533475 2.4:-14941619 None:intergenic
AGAAATGGAAAGATTGTTGG+AGG 0.534953 2.4:+14942128 MS.gene94618:CDS
CAAGTTTGAATGCATAAAGA+AGG 0.541080 2.4:+14942071 MS.gene94618:intron
AACTTCACATGATGTGAAGA+AGG 0.546693 2.4:-14941236 None:intergenic
TTGAATGCATAAAGAAGGAT+GGG 0.549402 2.4:+14942076 MS.gene94618:CDS
AAGAAAGGGAATACCTCGTA+GGG 0.554824 2.4:+14942332 MS.gene94618:CDS
ATTGTTGGAGGAATCAATCA+AGG 0.555066 2.4:+14942140 MS.gene94618:CDS
ATACCTATCGTCTTCTTCGT+AGG 0.556131 2.4:-14941675 None:intergenic
AATCGAAAAGTAAATGAAGC+GGG 0.558672 2.4:+14942204 MS.gene94618:CDS
CAGTTGTATTCATAAACAAG+AGG 0.585618 2.4:+14941640 MS.gene94618:CDS
GAAGAAAGGGAATACCTCGT+AGG 0.613671 2.4:+14942331 MS.gene94618:CDS
AAATCGAAAAGTAAATGAAG+CGG 0.626418 2.4:+14942203 MS.gene94618:CDS
CAACCTACGAAGAAGACGAT+AGG 0.637898 2.4:+14941672 MS.gene94618:CDS
ATCTTTGTAAGATATGTCAA+AGG 0.646257 2.4:+14941718 MS.gene94618:CDS
TGAATGCATAAAGAAGGATG+GGG 0.648201 2.4:+14942077 MS.gene94618:CDS
GAATGCATAAAGAAGGATGG+GGG 0.668084 2.4:+14942078 MS.gene94618:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAATTAATTAAAGAAAAG+TGG - chr2.4:14941443-14941462 None:intergenic 10.0%
!! ACAAAATAAATTAAAAAAAG+AGG - chr2.4:14941845-14941864 None:intergenic 10.0%
!! GAAAGAAAAAGAATTAAAAT+TGG - chr2.4:14941141-14941160 None:intergenic 15.0%
!!! TGTATAATTTTTTTGACTTT+GGG + chr2.4:14941481-14941500 MS.gene94618:intron 15.0%
!!! TTGTATAATTTTTTTGACTT+TGG + chr2.4:14941480-14941499 MS.gene94618:intron 15.0%
!! AAAAAGAGGATCTATAAAAA+AGG - chr2.4:14941831-14941850 None:intergenic 20.0%
!!! AATCGCTTTATTGTTTTTAT+TGG + chr2.4:14941941-14941960 MS.gene94618:intron 20.0%
!!! TTTTTATTGGTGTAAAGAAT+GGG + chr2.4:14941954-14941973 MS.gene94618:intron 20.0%
! AAATCGAAAAGTAAATGAAG+CGG + chr2.4:14942203-14942222 MS.gene94618:CDS 25.0%
! AATCGAAATTTACAAGCATT+TGG + chr2.4:14941578-14941597 MS.gene94618:CDS 25.0%
! ATAAAAAAGGAGACATGATA+AGG - chr2.4:14941818-14941837 None:intergenic 25.0%
! ATCTTTGTAAGATATGTCAA+AGG + chr2.4:14941718-14941737 MS.gene94618:CDS 25.0%
! TATACTTGCAATTACAAATC+AGG + chr2.4:14941521-14941540 MS.gene94618:intron 25.0%
!! GTTTTTATTGGTGTAAAGAA+TGG + chr2.4:14941953-14941972 MS.gene94618:intron 25.0%
!!! GATTTTTTGGCTTTTTGTTT+TGG - chr2.4:14942168-14942187 None:intergenic 25.0%
AAAGCCAAATTCAAGAAGAA+AGG + chr2.4:14942317-14942336 MS.gene94618:CDS 30.0%
AAGAAGACGATAGGTATAAT+TGG + chr2.4:14941681-14941700 MS.gene94618:CDS 30.0%
AAGCCAAATTCAAGAAGAAA+GGG + chr2.4:14942318-14942337 MS.gene94618:CDS 30.0%
AATCGAAAAGTAAATGAAGC+GGG + chr2.4:14942204-14942223 MS.gene94618:CDS 30.0%
AATTGGCATTGTAATTGAAG+TGG - chr2.4:14941124-14941143 None:intergenic 30.0%
ACGAAGAGAATGAAGAAAAA+AGG + chr2.4:14942244-14942263 MS.gene94618:CDS 30.0%
AGAAGAAATGGAAAGATTGT+TGG + chr2.4:14942125-14942144 MS.gene94618:CDS 30.0%
ATATGTCAAAGGAATCTTGT+AGG + chr2.4:14941729-14941748 MS.gene94618:CDS 30.0%
ATTCCCTTTCTTCTTGAATT+TGG - chr2.4:14942324-14942343 None:intergenic 30.0%
ATTGGCATTGTAATTGAAGT+GGG - chr2.4:14941123-14941142 None:intergenic 30.0%
CAAGTTTGAATGCATAAAGA+AGG + chr2.4:14942071-14942090 MS.gene94618:intron 30.0%
CAGTTGTATTCATAAACAAG+AGG + chr2.4:14941640-14941659 MS.gene94618:CDS 30.0%
CGAAGAGAATGAAGAAAAAA+GGG + chr2.4:14942245-14942264 MS.gene94618:CDS 30.0%
TACAAGCATTTGGATATTCT+AGG + chr2.4:14941588-14941607 MS.gene94618:CDS 30.0%
TGTAAAGTTGCTAATCACAT+AGG - chr2.4:14941622-14941641 None:intergenic 30.0%
TTGAATGCATAAAGAAGGAT+GGG + chr2.4:14942076-14942095 MS.gene94618:CDS 30.0%
TTTATGCAAGATCCACAAAA+TGG - chr2.4:14941319-14941338 None:intergenic 30.0%
TTTGAATGCATAAAGAAGGA+TGG + chr2.4:14942075-14942094 MS.gene94618:CDS 30.0%
! ATTTTGTTCACGCGATTTTT+TGG - chr2.4:14942181-14942200 None:intergenic 30.0%
! CAAAAATTTGCTTGCAATCA+CGG + chr2.4:14941213-14941232 MS.gene94618:CDS 30.0%
!!! AATCGTTGTTTTTGTCACTT+AGG + chr2.4:14941168-14941187 MS.gene94618:intron 30.0%
!!! CTTGAATTTGGCTTTTTGAT+AGG - chr2.4:14942312-14942331 None:intergenic 30.0%
AACTTCACATGATGTGAAGA+AGG - chr2.4:14941239-14941258 None:intergenic 35.0%
AGAAATGGAAAGATTGTTGG+AGG + chr2.4:14942128-14942147 MS.gene94618:CDS 35.0%
AGAGAATGAAGAAAAAAGGG+AGG + chr2.4:14942248-14942267 MS.gene94618:CDS 35.0%
AGTTGCTAATCACATAGGTT+TGG - chr2.4:14941617-14941636 None:intergenic 35.0%
ATTGTTGGAGGAATCAATCA+AGG + chr2.4:14942140-14942159 MS.gene94618:CDS 35.0%
CCAAGTGAGTGTTCTTTAAA+GGG + chr2.4:14941366-14941385 MS.gene94618:intron 35.0%
TCCAAGTGAGTGTTCTTTAA+AGG + chr2.4:14941365-14941384 MS.gene94618:intron 35.0%
TGAATGCATAAAGAAGGATG+GGG + chr2.4:14942077-14942096 MS.gene94618:CDS 35.0%
TTGCAATTACAAATCAGGTG+AGG + chr2.4:14941526-14941545 MS.gene94618:intron 35.0%
! TGCAATGACAATCCATTTTG+TGG + chr2.4:14941304-14941323 MS.gene94618:CDS 35.0%
!! ACCTTATTACTTTTGCTCTC+TGG + chr2.4:14941752-14941771 MS.gene94618:CDS 35.0%
AAGAAAGGGAATACCTCGTA+GGG + chr2.4:14942332-14942351 MS.gene94618:CDS 40.0%
ATACCTATCGTCTTCTTCGT+AGG - chr2.4:14941678-14941697 None:intergenic 40.0%
GAATGCATAAAGAAGGATGG+GGG + chr2.4:14942078-14942097 MS.gene94618:CDS 40.0%
GCCAGAGAGCAAAAGTAATA+AGG - chr2.4:14941756-14941775 None:intergenic 40.0%
TATCGTCTTCTTCGTAGGTT+GGG - chr2.4:14941673-14941692 None:intergenic 40.0%
TGCAAAGGAGACAGAAGAAA+TGG + chr2.4:14942113-14942132 MS.gene94618:CDS 40.0%
! CCCTTTAAAGAACACTCACT+TGG - chr2.4:14941369-14941388 None:intergenic 40.0%
! TTCTTCGTAGGTTGGGAATA+AGG - chr2.4:14941666-14941685 None:intergenic 40.0%
!! GCAAGCAAATTTTTGAGCCA+GGG - chr2.4:14941208-14941227 None:intergenic 40.0%
!! TGCAAGCAAATTTTTGAGCC+AGG - chr2.4:14941209-14941228 None:intergenic 40.0%
CAACCTACGAAGAAGACGAT+AGG + chr2.4:14941672-14941691 MS.gene94618:CDS 45.0%
CTATCGTCTTCTTCGTAGGT+TGG - chr2.4:14941674-14941693 None:intergenic 45.0%
CTTCTGTCTCCTTTGCACTT+AGG - chr2.4:14942110-14942129 None:intergenic 45.0%
GAAGAAAGGGAATACCTCGT+AGG + chr2.4:14942331-14942350 MS.gene94618:CDS 45.0%
!! GGGCTTTTTCCTAAGTGCAA+AGG + chr2.4:14942098-14942117 MS.gene94618:CDS 45.0%
!! TAAAAAAAGGGTGCCCTACG+AGG - chr2.4:14942348-14942367 None:intergenic 45.0%
!!! TTATGTTTATTAATTTTTAT+TGG + chr2.4:14941912-14941931 MS.gene94618:intron 5.0%
AGGATATGATGTTCGTGCCC+TGG + chr2.4:14941188-14941207 MS.gene94618:intron 50.0%
! CTTTTGCTCTCTGGCATGCA+AGG + chr2.4:14941761-14941780 MS.gene94618:CDS 50.0%


Chromosome Type Strat End Strand Name
chr2.4 gene 14941107 14942368 14941107 ID=MS.gene94618
chr2.4 mRNA 14941107 14942368 14941107 ID=MS.gene94618.t1;Parent=MS.gene94618
chr2.4 exon 14941107 14941109 14941107 ID=MS.gene94618.t1.exon1;Parent=MS.gene94618.t1
chr2.4 CDS 14941107 14941109 14941107 ID=cds.MS.gene94618.t1;Parent=MS.gene94618.t1
chr2.4 exon 14941190 14941369 14941190 ID=MS.gene94618.t1.exon2;Parent=MS.gene94618.t1
chr2.4 CDS 14941190 14941369 14941190 ID=cds.MS.gene94618.t1;Parent=MS.gene94618.t1
chr2.4 exon 14941543 14941782 14941543 ID=MS.gene94618.t1.exon3;Parent=MS.gene94618.t1
chr2.4 CDS 14941543 14941782 14941543 ID=cds.MS.gene94618.t1;Parent=MS.gene94618.t1
chr2.4 exon 14942075 14942368 14942075 ID=MS.gene94618.t1.exon4;Parent=MS.gene94618.t1
chr2.4 CDS 14942075 14942368 14942075 ID=cds.MS.gene94618.t1;Parent=MS.gene94618.t1
Gene Sequence

>MS.gene94618

ATGGTAAAGCATACCCACTTCAATTACAATGCCAATTTTAATTCTTTTTCTTTCTTACTACAATCGTTGTTTTTGTCACTTAGGATATGATGTTCGTGCCCTGGCTCAAAAATTTGCTTGCAATCACGGCCTTCTTCACATCATGTGAAGTTCATCTGAATGAGTCAAAAAATGAACGCAACATGTTCTGTCTCGAATGCAATGACAATCCATTTTGTGGATCTTGCATAAAATCTCATCACAAAGATCATCGAGTAATCCAAGTGAGTGTTCTTTAAAGGGATAGTTAGATCTATATAATATCTCGATAATCTATGTATCTTTATGTGATATCCACTTTTCTTTAATTAATTTTTGTTACATTCAAATAGTTTTGTATAATTTTTTTGACTTTGGGATCTAAATTTGAACTTGTATACTTGCAATTACAAATCAGGTGAGGAGATCATCTTATACAAACGTCATTAAGACAATCGAAATTTACAAGCATTTGGATATTCTAGGAATCCAAACCTATGTGATTAGCAACTTTACAGTTGTATTCATAAACAAGAGGCCTTATTCCCAACCTACGAAGAAGACGATAGGTATAATTGGTTGCAGTAGCGACTATCTTTGTAAGATATGTCAAAGGAATCTTGTAGGACCTTATTACTTTTGCTCTCTGGCATGCAAGGTAAATTGTTTTCTCGATCTCATTTTCTTTTTCCTTATCATGTCTCCTTTTTTATAGATCCTCTTTTTTTAATTTATTTTGTAAATAAATTTCAAAAATTGTGTTCAGATATTTAATTGAGAATGTAATTTATGTTTATTAATTTTTATTGGTATTTCAATCGCTTTATTGTTTTTATTGGTGTAAAGAATGGGAATACTTTTTTTCGTTGATTATGATTGTTGTACTTTTATTATTTTTTTCTTTTTTAAATATAGTTAATTAATGTTGCGTATTGTGTGTATGATACAAGTTTGAATGCATAAAGAAGGATGGGGGCTTTTTCCTAAGTGCAAAGGAGACAGAAGAAATGGAAAGATTGTTGGAGGAATCAATCAAGGCACCAAAACAAAAAGCCAAAAAATCGCGTGAACAAAATCTAAATCGAAAAGTAAATGAAGCGGGAATCAACAATGAAGAAAACGAAGAGAATGAAGAAAAAAGGGAGGAAGAAGAAAATGAACAAGAAAAAAGAGAAAACATGCTTCCTATCAAAAAGCCAAATTCAAGAAGAAAGGGAATACCTCGTAGGGCACCCTTTTTTTAA
Protein sequence

>MS.gene94618.t1

MDMMFVPWLKNLLAITAFFTSCEVHLNESKNERNMFCLECNDNPFCGSCIKSHHKDHRVIQVRRSSYTNVIKTIEIYKHLDILGIQTYVISNFTVVFINKRPYSQPTKKTIGIIGCSSDYLCKICQRNLVGPYYFCSLACKFECIKKDGGFFLSAKETEEMERLLEESIKAPKQKAKKSREQNLNRKVNEAGINNEENEENEEKREEEENEQEKRENMLPIKKPNSRRKGIPRRAPFF