AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene073129

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene073129.t1 MTR_2g084495 89.212 241 15 2 3 243 1 230 4.22e-145 405
MS.gene073129.t1 MTR_2g084510 57.430 249 90 5 4 243 1 242 2.28e-91 269
MS.gene073129.t1 MTR_2g084525 60.000 250 84 4 3 243 1 243 2.67e-87 259
MS.gene073129.t1 MTR_2g060500 69.178 146 40 1 1 146 5 145 2.30e-67 205
MS.gene073129.t1 MTR_2g060540 68.493 146 41 1 1 146 5 145 8.82e-67 203
MS.gene073129.t1 MTR_1g062160 39.286 252 92 9 1 242 1 201 3.06e-46 153
MS.gene073129.t1 MTR_7g102790 38.776 245 104 9 1 242 1 202 1.46e-41 141
MS.gene073129.t1 MTR_5g030130 35.628 247 106 7 2 242 31 230 7.68e-40 137
MS.gene073129.t1 MTR_5g030130 45.517 145 64 3 2 146 31 160 1.57e-38 133
MS.gene073129.t1 MTR_5g007230 34.025 241 109 5 2 242 17 207 1.85e-38 133
MS.gene073129.t1 MTR_4g078170 34.034 238 114 8 5 242 14 208 2.61e-36 128
MS.gene073129.t1 MTR_8g066820 43.357 143 66 3 5 147 32 159 4.36e-35 125
MS.gene073129.t1 MTR_2g083720 51.181 127 19 2 1 127 1 84 5.06e-30 107
MS.gene073129.t1 MTR_2g083710 73.134 67 13 1 1 67 1 62 2.89e-27 100
MS.gene073129.t1 MTR_4g094680 30.705 241 135 9 8 243 24 237 2.64e-26 102
MS.gene073129.t1 MTR_2g055210 29.961 257 144 10 5 242 100 339 2.54e-24 99.4
MS.gene073129.t1 MTR_2g036170 31.250 240 133 10 8 242 39 251 6.60e-22 91.3
MS.gene073129.t1 MTR_4g116300 39.310 145 72 6 8 152 8 136 3.21e-20 86.7
MS.gene073129.t1 MTR_8g105930 33.000 100 58 3 8 107 15 105 6.55e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene073129.t1 AT1G43000 36.327 245 119 7 2 242 12 223 9.35e-45 150
MS.gene073129.t1 AT1G43000 36.327 245 119 7 2 242 5 216 1.22e-44 149
MS.gene073129.t1 AT1G21000 35.060 251 137 8 2 242 12 246 1.63e-41 142
MS.gene073129.t1 AT1G21000 35.060 251 137 8 2 242 9 243 1.72e-41 142
MS.gene073129.t1 AT1G76590 35.246 244 133 7 7 242 19 245 8.60e-40 138
MS.gene073129.t1 AT4G17900 47.222 144 60 4 5 147 33 161 5.15e-37 130
MS.gene073129.t1 AT1G32700 46.207 145 63 3 8 152 14 143 1.00e-36 129
MS.gene073129.t1 AT4G17900 47.222 144 60 4 5 147 19 147 1.61e-36 128
MS.gene073129.t1 AT2G27930 44.444 144 69 4 8 148 6 141 3.32e-32 116
MS.gene073129.t1 AT2G27930 44.444 144 69 4 8 148 6 141 3.32e-32 116
MS.gene073129.t1 AT2G27930 44.366 142 68 4 8 146 6 139 3.33e-31 113
MS.gene073129.t1 AT2G27930 44.366 142 68 4 8 146 6 139 3.33e-31 113
MS.gene073129.t1 AT1G32700 46.610 118 49 2 35 152 1 104 3.54e-29 108
MS.gene073129.t1 AT5G46710 33.755 237 114 8 8 242 14 209 3.11e-28 107
MS.gene073129.t1 AT5G46710 33.755 237 114 8 8 242 30 225 9.53e-28 106
MS.gene073129.t1 AT5G46710 42.143 140 65 4 8 146 30 154 1.40e-26 101
MS.gene073129.t1 AT1G31040 30.579 242 141 9 8 242 21 242 2.70e-23 94.7
MS.gene073129.t1 AT3G60670 29.297 256 148 10 5 243 6 245 9.78e-22 90.9
MS.gene073129.t1 AT2G12646 37.931 145 74 5 8 152 8 136 5.50e-21 89.0
MS.gene073129.t1 AT2G12646 37.931 145 74 5 8 152 8 136 5.50e-21 89.0
MS.gene073129.t1 AT2G12646 38.621 145 73 6 8 152 5 133 5.79e-21 89.0
MS.gene073129.t1 AT2G27930 33.702 181 65 5 66 242 61 190 3.13e-17 77.4
MS.gene073129.t1 AT2G27930 33.702 181 65 5 66 242 61 190 3.13e-17 77.4
MS.gene073129.t1 AT2G01818 29.958 237 138 10 8 243 13 222 3.29e-17 78.2

Find 36 sgRNAs with CRISPR-Local

Find 72 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTCCCTTTCTTCTTGAATT+TGG 0.126179 2.2:-13220280 None:intergenic
GAAGAAAATGAACAAGAAAA+AGG 0.273475 2.2:+13220232 MS.gene073129:CDS
AATCGAAATTTACAAGCATT+TGG 0.312437 2.2:+13219536 MS.gene073129:CDS
TTCTTCGTAGGTTGGGAATA+AGG 0.331085 2.2:-13219621 None:intergenic
CAAATGCAAGATCCACAAAA+TGG 0.340353 2.2:-13219259 None:intergenic
TACAAGCATTTGGATATTCT+AGG 0.347196 2.2:+13219546 MS.gene073129:CDS
AAGAAGACGATAGGTATAAT+TGG 0.364201 2.2:+13219639 MS.gene073129:CDS
AGTTGCTAATCACATAGGTT+TGG 0.394909 2.2:-13219572 None:intergenic
TGCAAAGGAGACAGAAGAAA+TGG 0.410636 2.2:+13220072 MS.gene073129:CDS
AGAAGAAATGGAAAGATTGT+TGG 0.417250 2.2:+13220084 MS.gene073129:CDS
TATCGTCTTCTTCGTAGGTT+GGG 0.419261 2.2:-13219628 None:intergenic
GCCAGAGAGCAAAAGTAATA+AGG 0.422528 2.2:-13219711 None:intergenic
CTTCTGTCTCCTTTGCACTT+AGG 0.432332 2.2:-13220066 None:intergenic
AAAGCCAAATTCAAGAAGAA+AGG 0.446839 2.2:+13220276 MS.gene073129:CDS
AAGGTCCTACAAGATTCCTT+TGG 0.477640 2.2:-13219692 None:intergenic
CTATCGTCTTCTTCGTAGGT+TGG 0.485528 2.2:-13219629 None:intergenic
ATATGCCAAAGGAATCTTGT+AGG 0.487935 2.2:+13219687 MS.gene073129:CDS
AAGCCAAATTCAAGAAGAAA+GGG 0.497702 2.2:+13220277 MS.gene073129:CDS
AATCGAAAATTAAATGAAGC+GGG 0.509554 2.2:+13220163 MS.gene073129:CDS
AGGATATGATGTTCGTGCCC+TGG 0.529076 2.2:+13219131 MS.gene073129:intron
TTTGAATGCATAAAGAAGGA+TGG 0.531033 2.2:+13220034 MS.gene073129:CDS
TGTAAAGTTGCTAATCACAT+AGG 0.533475 2.2:-13219577 None:intergenic
AGAAATGGAAAGATTGTTGG+AGG 0.534953 2.2:+13220087 MS.gene073129:CDS
CAAGTTTGAATGCATAAAGA+AGG 0.541080 2.2:+13220030 MS.gene073129:intron
AACTTCACATGATGTGAAGA+AGG 0.546693 2.2:-13219179 None:intergenic
TTGAATGCATAAAGAAGGAT+GGG 0.549402 2.2:+13220035 MS.gene073129:CDS
AAGAAAGGGAATACCTCGTA+GGG 0.554824 2.2:+13220291 MS.gene073129:CDS
ATTGTTGGAGGAATCAATCA+AGG 0.555066 2.2:+13220099 MS.gene073129:CDS
ATACCTATCGTCTTCTTCGT+AGG 0.556131 2.2:-13219633 None:intergenic
AAATCGAAAATTAAATGAAG+CGG 0.566619 2.2:+13220162 MS.gene073129:CDS
CAGTTGTATTCATAAACAAG+AGG 0.585618 2.2:+13219598 MS.gene073129:CDS
GAAGAAAGGGAATACCTCGT+AGG 0.613671 2.2:+13220290 MS.gene073129:CDS
CAACCTACGAAGAAGACGAT+AGG 0.637898 2.2:+13219630 MS.gene073129:CDS
TGAATGCATAAAGAAGGATG+GGG 0.648201 2.2:+13220036 MS.gene073129:CDS
GAATGCATAAAGAAGGATGG+GGG 0.668084 2.2:+13220037 MS.gene073129:CDS
ATCTTTGTAAGATATGCCAA+AGG 0.674093 2.2:+13219676 MS.gene073129:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAAAAAAGGAATTAAAAT+TGG - chr2.2:13219083-13219102 None:intergenic 10.0%
!! AAAAATTAATTAAAGAAAAG+TGG - chr2.2:13219401-13219420 None:intergenic 10.0%
!! ACAAAATAAATTAAAAAAAG+AGG - chr2.2:13219803-13219822 None:intergenic 10.0%
!!! TGTATAATTTTTTTGACTTT+GGG + chr2.2:13219439-13219458 MS.gene073129:intron 15.0%
!!! TTGTATAATTTTTTTGACTT+TGG + chr2.2:13219438-13219457 MS.gene073129:intron 15.0%
!! AAAAAGAGGATCTATAAAAA+AGG - chr2.2:13219789-13219808 None:intergenic 20.0%
!! AAATCGAAAATTAAATGAAG+CGG + chr2.2:13220162-13220181 MS.gene073129:CDS 20.0%
!! GATTGTAGTAAGAAAAAAAA+AGG - chr2.2:13219095-13219114 None:intergenic 20.0%
!!! CAATCGCTTAATTTTTTTAT+TGG + chr2.2:13219898-13219917 MS.gene073129:intron 20.0%
!!! TTTTTATTGGTGTAAAGAAT+GGG + chr2.2:13219911-13219930 MS.gene073129:intron 20.0%
!!! TTTTTTATTGGTGTAAAGAA+TGG + chr2.2:13219910-13219929 MS.gene073129:intron 20.0%
! AATCGAAAATTAAATGAAGC+GGG + chr2.2:13220163-13220182 MS.gene073129:CDS 25.0%
! AATCGAAATTTACAAGCATT+TGG + chr2.2:13219536-13219555 MS.gene073129:CDS 25.0%
! ATAAAAAAGGAGACATGATA+AGG - chr2.2:13219776-13219795 None:intergenic 25.0%
! GAAGAAAATGAACAAGAAAA+AGG + chr2.2:13220232-13220251 MS.gene073129:CDS 25.0%
! TATACTTGCAATTACAAATC+AGG + chr2.2:13219479-13219498 MS.gene073129:intron 25.0%
!!! GATTTTTTGGCTTTTTGTTT+TGG - chr2.2:13220127-13220146 None:intergenic 25.0%
AAAGCCAAATTCAAGAAGAA+AGG + chr2.2:13220276-13220295 MS.gene073129:CDS 30.0%
AAGAAGACGATAGGTATAAT+TGG + chr2.2:13219639-13219658 MS.gene073129:CDS 30.0%
AAGCCAAATTCAAGAAGAAA+GGG + chr2.2:13220277-13220296 MS.gene073129:CDS 30.0%
AATTGGCATTGTAATTGAAG+TGG - chr2.2:13219066-13219085 None:intergenic 30.0%
ACGAAGAGAATGAAGAAAAA+AGG + chr2.2:13220203-13220222 MS.gene073129:CDS 30.0%
AGAAGAAATGGAAAGATTGT+TGG + chr2.2:13220084-13220103 MS.gene073129:CDS 30.0%
ATCTTTGTAAGATATGCCAA+AGG + chr2.2:13219676-13219695 MS.gene073129:CDS 30.0%
ATTCCCTTTCTTCTTGAATT+TGG - chr2.2:13220283-13220302 None:intergenic 30.0%
ATTGGCATTGTAATTGAAGT+GGG - chr2.2:13219065-13219084 None:intergenic 30.0%
CAAGTTTGAATGCATAAAGA+AGG + chr2.2:13220030-13220049 MS.gene073129:intron 30.0%
CAGTTGTATTCATAAACAAG+AGG + chr2.2:13219598-13219617 MS.gene073129:CDS 30.0%
CGAAGAGAATGAAGAAAAAA+GGG + chr2.2:13220204-13220223 MS.gene073129:CDS 30.0%
TACAAGCATTTGGATATTCT+AGG + chr2.2:13219546-13219565 MS.gene073129:CDS 30.0%
TGTAAAGTTGCTAATCACAT+AGG - chr2.2:13219580-13219599 None:intergenic 30.0%
TTGAATGCATAAAGAAGGAT+GGG + chr2.2:13220035-13220054 MS.gene073129:CDS 30.0%
TTTGAATGCATAAAGAAGGA+TGG + chr2.2:13220034-13220053 MS.gene073129:CDS 30.0%
! ATTTTGTTCACGCGATTTTT+TGG - chr2.2:13220140-13220159 None:intergenic 30.0%
! CAAAAATTTGCTTGCAATCA+CGG + chr2.2:13219156-13219175 MS.gene073129:CDS 30.0%
!!! AATCGTTGTTTTTGTCACTT+AGG + chr2.2:13219111-13219130 MS.gene073129:intron 30.0%
!!! CTTGAATTTGGCTTTTTGAT+AGG - chr2.2:13220271-13220290 None:intergenic 30.0%
AACTTCACATGATGTGAAGA+AGG - chr2.2:13219182-13219201 None:intergenic 35.0%
AGAAATGGAAAGATTGTTGG+AGG + chr2.2:13220087-13220106 MS.gene073129:CDS 35.0%
AGAGAATGAAGAAAAAAGGG+AGG + chr2.2:13220207-13220226 MS.gene073129:CDS 35.0%
AGTTGCTAATCACATAGGTT+TGG - chr2.2:13219575-13219594 None:intergenic 35.0%
ATATGCCAAAGGAATCTTGT+AGG + chr2.2:13219687-13219706 MS.gene073129:CDS 35.0%
ATTGTTGGAGGAATCAATCA+AGG + chr2.2:13220099-13220118 MS.gene073129:CDS 35.0%
CAAATGCAAGATCCACAAAA+TGG - chr2.2:13219262-13219281 None:intergenic 35.0%
CCAAGTGAGTGTTCTTTAAA+GGG + chr2.2:13219324-13219343 MS.gene073129:intron 35.0%
TCCAAGTGAGTGTTCTTTAA+AGG + chr2.2:13219323-13219342 MS.gene073129:intron 35.0%
TGAATGCATAAAGAAGGATG+GGG + chr2.2:13220036-13220055 MS.gene073129:CDS 35.0%
TTGCAATTACAAATCAGGTG+AGG + chr2.2:13219484-13219503 MS.gene073129:intron 35.0%
! TGCAATGACAATCCATTTTG+TGG + chr2.2:13219247-13219266 MS.gene073129:CDS 35.0%
! TTTTGTGGATCTTGCATTTG+TGG + chr2.2:13219262-13219281 MS.gene073129:CDS 35.0%
!! ACCTTATTACTTTTGCTCTC+TGG + chr2.2:13219710-13219729 MS.gene073129:CDS 35.0%
AAGAAAGGGAATACCTCGTA+GGG + chr2.2:13220291-13220310 MS.gene073129:CDS 40.0%
AAGGTCCTACAAGATTCCTT+TGG - chr2.2:13219695-13219714 None:intergenic 40.0%
ATACCTATCGTCTTCTTCGT+AGG - chr2.2:13219636-13219655 None:intergenic 40.0%
GAATGCATAAAGAAGGATGG+GGG + chr2.2:13220037-13220056 MS.gene073129:CDS 40.0%
GCCAGAGAGCAAAAGTAATA+AGG - chr2.2:13219714-13219733 None:intergenic 40.0%
TATCGTCTTCTTCGTAGGTT+GGG - chr2.2:13219631-13219650 None:intergenic 40.0%
TGCAAAGGAGACAGAAGAAA+TGG + chr2.2:13220072-13220091 MS.gene073129:CDS 40.0%
! CCCTTTAAAGAACACTCACT+TGG - chr2.2:13219327-13219346 None:intergenic 40.0%
! TTCTTCGTAGGTTGGGAATA+AGG - chr2.2:13219624-13219643 None:intergenic 40.0%
!! GCAAGCAAATTTTTGAGCCA+GGG - chr2.2:13219151-13219170 None:intergenic 40.0%
!! TGCAAGCAAATTTTTGAGCC+AGG - chr2.2:13219152-13219171 None:intergenic 40.0%
!! TTAAAAAAAGGTGCCCTACG+AGG - chr2.2:13220307-13220326 None:intergenic 40.0%
!!! TCGTAGGGCACCTTTTTTTA+AGG + chr2.2:13220306-13220325 MS.gene073129:CDS 40.0%
CAACCTACGAAGAAGACGAT+AGG + chr2.2:13219630-13219649 MS.gene073129:CDS 45.0%
CTATCGTCTTCTTCGTAGGT+TGG - chr2.2:13219632-13219651 None:intergenic 45.0%
CTTCTGTCTCCTTTGCACTT+AGG - chr2.2:13220069-13220088 None:intergenic 45.0%
GAAGAAAGGGAATACCTCGT+AGG + chr2.2:13220290-13220309 MS.gene073129:CDS 45.0%
!! GGGCTTTTTCCTAAGTGCAA+AGG + chr2.2:13220057-13220076 MS.gene073129:CDS 45.0%
!!! TTATGTTTATTAATTTTTAT+TGG + chr2.2:13219870-13219889 MS.gene073129:intron 5.0%
AGGATATGATGTTCGTGCCC+TGG + chr2.2:13219131-13219150 MS.gene073129:intron 50.0%
! CTTTTGCTCTCTGGCATGCA+AGG + chr2.2:13219719-13219738 MS.gene073129:CDS 50.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 13219049 13220333 13219049 ID=MS.gene073129
chr2.2 mRNA 13219049 13220333 13219049 ID=MS.gene073129.t1;Parent=MS.gene073129
chr2.2 exon 13219049 13219051 13219049 ID=MS.gene073129.t1.exon1;Parent=MS.gene073129.t1
chr2.2 CDS 13219049 13219051 13219049 ID=cds.MS.gene073129.t1;Parent=MS.gene073129.t1
chr2.2 exon 13219133 13219327 13219133 ID=MS.gene073129.t1.exon2;Parent=MS.gene073129.t1
chr2.2 CDS 13219133 13219327 13219133 ID=cds.MS.gene073129.t1;Parent=MS.gene073129.t1
chr2.2 exon 13219501 13219740 13219501 ID=MS.gene073129.t1.exon3;Parent=MS.gene073129.t1
chr2.2 CDS 13219501 13219740 13219501 ID=cds.MS.gene073129.t1;Parent=MS.gene073129.t1
chr2.2 exon 13220034 13220333 13220034 ID=MS.gene073129.t1.exon4;Parent=MS.gene073129.t1
chr2.2 CDS 13220034 13220333 13220034 ID=cds.MS.gene073129.t1;Parent=MS.gene073129.t1
Gene Sequence

>MS.gene073129

ATGGTAAAGCATACCCACTTCAATTACAATGCCAATTTTAATTCCTTTTTTTTTCTTACTACAATCGTTGTTTTTGTCACTTAGGATATGATGTTCGTGCCCTGGCTCAAAAATTTGCTTGCAATCACGGCCTTCTTCACATCATGTGAAGTTCATCTGAATGAGTCAAAAAATGAACGCAACATGTTCTGTCTCGAATGCAATGACAATCCATTTTGTGGATCTTGCATTTGTGGATCTTGCATAAAATCTCATCACAAAGATCATCGAGTAATCCAAGTGAGTGTTCTTTAAAGGGATAGCTAGATCTATATAATATCTCGATAATCTATGTATCTTTATGTGATATCCACTTTTCTTTAATTAATTTTTGTTACATTCAAATAGTTTTGTATAATTTTTTTGACTTTGGGATCTAAATTTGAACTTGTATACTTGCAATTACAAATCAGGTGAGGAGATCATCTTATACAAACGTCATTAAGACAATCGAAATTTACAAGCATTTGGATATTCTAGGAATCCAAACCTATGTGATTAGCAACTTTACAGTTGTATTCATAAACAAGAGGCCTTATTCCCAACCTACGAAGAAGACGATAGGTATAATTGGTTGCAGTAGCGACTATCTTTGTAAGATATGCCAAAGGAATCTTGTAGGACCTTATTACTTTTGCTCTCTGGCATGCAAGGTAAATTGTTTTCTCGATCTCATTTTCTTTTTCCTTATCATGTCTCCTTTTTTATAGATCCTCTTTTTTTAATTTATTTTGTAAATAAATTTCAAAAATTGTGTTCAAATATTTAATTGAGAATGTAATTTATGTTTATTAATTTTTATTGGTATTTCAATCGCTTAATTTTTTTATTGGTGTAAAGAATGGGAATACTTTTTTTCGTTGATTATGATTGTTGTACTTTTATTATTTTTTTCTTTTTTAAATATAGTTAATTAATGTTGCGTATTGTGTGTGTATGATACAAGTTTGAATGCATAAAGAAGGATGGGGGCTTTTTCCTAAGTGCAAAGGAGACAGAAGAAATGGAAAGATTGTTGGAGGAATCAATCAAGGCACCAAAACAAAAAGCCAAAAAATCGCGTGAACAAAATCTAAATCGAAAATTAAATGAAGCGGGAATCAACAATGAAGAAAACGAAGAGAATGAAGAAAAAAGGGAGGAAGAAGAAAATGAACAAGAAAAAGGAGAAAACATGCTTCCTATCAAAAAGCCAAATTCAAGAAGAAAGGGAATACCTCGTAGGGCACCTTTTTTTAAGGCCTAA
Protein sequence

>MS.gene073129.t1

MDMMFVPWLKNLLAITAFFTSCEVHLNESKNERNMFCLECNDNPFCGSCICGSCIKSHHKDHRVIQVRRSSYTNVIKTIEIYKHLDILGIQTYVISNFTVVFINKRPYSQPTKKTIGIIGCSSDYLCKICQRNLVGPYYFCSLACKFECIKKDGGFFLSAKETEEMERLLEESIKAPKQKAKKSREQNLNRKLNEAGINNEENEENEEKREEEENEQEKGENMLPIKKPNSRRKGIPRRAPFFKA