AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene023893

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene023893.t1 MTR_7g077650 94.526 274 15 0 1 274 99 372 0.0 526
MS.gene023893.t1 MTR_7g077660 84.783 276 33 3 2 274 99 368 1.62e-164 461
MS.gene023893.t1 MTR_7g077620 68.727 275 73 7 2 270 101 368 3.46e-119 347
MS.gene023893.t1 MTR_7g076110 52.113 284 117 7 4 274 36 313 1.40e-84 256
MS.gene023893.t1 MTR_7g076100 57.143 245 86 7 39 274 66 300 5.14e-83 251
MS.gene023893.t1 MTR_1g108740 43.011 279 125 14 1 272 93 344 1.64e-53 177
MS.gene023893.t1 MTR_5g038260 41.290 310 127 15 2 274 92 383 4.33e-52 174
MS.gene023893.t1 MTR_5g038230 38.411 302 117 13 2 272 90 353 8.60e-48 162
MS.gene023893.t1 MTR_1g064570 38.209 335 120 19 2 274 91 400 1.16e-45 158
MS.gene023893.t1 MTR_5g082770 43.636 220 93 8 4 210 88 289 1.95e-41 144
MS.gene023893.t1 MTR_5g082780 40.000 245 97 10 15 239 1 215 1.49e-38 135
MS.gene023893.t1 MTR_7g076130 53.125 128 50 3 71 194 27 148 4.16e-36 126
MS.gene023893.t1 MTR_1g016150 48.913 92 42 4 1 89 102 191 1.96e-17 79.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 55 sgRNAs with CRISPR-Local

Find 67 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCAACTGCATGCAACAATTT+TGG 0.088169 7.1:-26023952 MS.gene023893:CDS
TCTTATAGGCGTCCTTATTA+TGG 0.163187 7.1:-26024298 MS.gene023893:CDS
AAAGACCAAGCCAGTCATTT+TGG 0.211714 7.1:-26024513 MS.gene023893:CDS
CTCCAGAACTATATTCTTAT+AGG 0.226179 7.1:-26024312 MS.gene023893:CDS
GTTGCAGTGATTTACAATTT+TGG 0.255525 7.1:-26024550 MS.gene023893:CDS
CAATACAATGAAATTGTGTT+TGG 0.287038 7.1:-26024734 None:intergenic
CATGAACAAACTTGAGAGTT+TGG 0.291578 7.1:-26024146 MS.gene023893:CDS
GGAGCTATACTGCTCTTAAA+AGG 0.328493 7.1:+26024652 None:intergenic
ACCTCTCGAATCTCTCAAAA+AGG 0.330053 7.1:-26024617 MS.gene023893:CDS
AAATAAGCACGCCCATAATA+AGG 0.333798 7.1:+26024286 None:intergenic
TAATCACTTGGGCTTGTAAT+GGG 0.338599 7.1:+26024577 None:intergenic
CTTATAGGCGTCCTTATTAT+GGG 0.341054 7.1:-26024297 MS.gene023893:CDS
CGCCTATAAGAATATAGTTC+TGG 0.352063 7.1:+26024310 None:intergenic
TTCGAGAGGTGGCAGACTAA+TGG 0.374836 7.1:+26024630 None:intergenic
CCATGGTTGGCTTGCATTGG+TGG 0.397590 7.1:-26024704 MS.gene023893:CDS
CTGTGCTATCAACAAATATC+AGG 0.408578 7.1:+26024437 None:intergenic
AAAAGGATTCACTAGAGTTA+TGG 0.411464 7.1:+26024669 None:intergenic
TGCTTTCTTCAAGTTGGAAA+AGG 0.413539 7.1:-26024068 MS.gene023893:CDS
AGCCTCTGCTTTCTTCAAGT+TGG 0.415552 7.1:-26024074 MS.gene023893:CDS
CAGTTCCAATTTGAAAATGC+AGG 0.419394 7.1:+26024195 None:intergenic
AAATTGTTGCATGCAGTTGA+AGG 0.433203 7.1:+26023955 None:intergenic
TCGAGAGGTGGCAGACTAAT+GGG 0.438780 7.1:+26024631 None:intergenic
ACTAGCCATCTTCTCATAGT+AGG 0.443005 7.1:+26024351 None:intergenic
GGGTTCTACCACAACTTAAG+TGG 0.451369 7.1:-26023931 MS.gene023893:CDS
TAGCCATGGTTGGCTTGCAT+TGG 0.461010 7.1:-26024707 MS.gene023893:CDS
AATACAATGAAATTGTGTTT+GGG 0.461564 7.1:-26024733 None:intergenic
ATAATCACTTGGGCTTGTAA+TGG 0.476686 7.1:+26024576 None:intergenic
ATGATGAAAAGATTCTTAAT+CGG 0.482155 7.1:-26024235 MS.gene023893:CDS
AGAAGGATTGTTCAACTTGA+AGG 0.483358 7.1:+26024402 None:intergenic
AATCATTGACCGGAGACATA+TGG 0.484616 7.1:-26024258 MS.gene023893:CDS
TACAAGCCCAAGTGATTATG+TGG 0.499442 7.1:-26024572 MS.gene023893:CDS
TTTCATCATCCATATGTCTC+CGG 0.512197 7.1:+26024249 None:intergenic
TTGTGTTTGGGCTGTAGCCA+TGG 0.523675 7.1:-26024721 MS.gene023893:CDS
GTTTGGGCTGTAGCCATGGT+TGG 0.525841 7.1:-26024717 MS.gene023893:CDS
CGAATCCAAAATGACTGGCT+TGG 0.533467 7.1:+26024508 None:intergenic
AGTTCCAATTTGAAAATGCA+GGG 0.535496 7.1:+26024196 None:intergenic
AACTTGAAGAAAGCAGAGGC+TGG 0.538703 7.1:+26024076 None:intergenic
TATATCTTTAATGTGAAGGA+TGG 0.540947 7.1:-26024007 MS.gene023893:CDS
ACTGCAACCACATAATCACT+TGG 0.547627 7.1:+26024565 None:intergenic
TCAAATGAGTCATCAGAAGA+AGG 0.554017 7.1:+26024385 None:intergenic
GGTTCTACCACAACTTAAGT+GGG 0.555055 7.1:-26023930 MS.gene023893:CDS
TATCTATATCTTTAATGTGA+AGG 0.560244 7.1:-26024011 MS.gene023893:CDS
TGTAATGGGGTCAGCAGACA+AGG 0.568289 7.1:+26024591 None:intergenic
CAGTTGAAGGAAAGCACTGA+AGG 0.581076 7.1:+26023968 None:intergenic
CTATAAGAATATAGTTCTGG+AGG 0.587258 7.1:+26024313 None:intergenic
GTTCAACTTGAAGGATACAA+TGG 0.598885 7.1:+26024411 None:intergenic
TTCCAACTTGAAGAAAGCAG+AGG 0.599876 7.1:+26024072 None:intergenic
CTACACGAATCCAAAATGAC+TGG 0.605238 7.1:+26024503 None:intergenic
AATCACTTGGGCTTGTAATG+GGG 0.606028 7.1:+26024578 None:intergenic
TATAAGAATATAGTTCTGGA+GGG 0.624070 7.1:+26024314 None:intergenic
ATGAAAAGATTCTTAATCGG+CGG 0.627273 7.1:-26024232 MS.gene023893:CDS
GATCAATCCCACTTAAGTTG+TGG 0.631134 7.1:+26023923 None:intergenic
CTGCAACCACATAATCACTT+GGG 0.636696 7.1:+26024566 None:intergenic
CCACCAATGCAAGCCAACCA+TGG 0.665097 7.1:+26024704 None:intergenic
TTGGAACTGGATGCCCAGAG+TGG 0.674354 7.1:-26024181 MS.gene023893:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! GATTCAATTTATTTTGTTAA+TGG - chr7.1:26024606-26024625 MS.gene023893:CDS 15.0%
!! ATGATGAAAAGATTCTTAAT+CGG - chr7.1:26024417-26024436 MS.gene023893:CDS 20.0%
!! TATCTATATCTTTAATGTGA+AGG - chr7.1:26024641-26024660 MS.gene023893:CDS 20.0%
!!! ACTGATGTTGTATTTTATAA+AGG - chr7.1:26024192-26024211 MS.gene023893:CDS 20.0%
! TATATCTTTAATGTGAAGGA+TGG - chr7.1:26024645-26024664 MS.gene023893:CDS 25.0%
! TTCTCATAGTAGGAAAAATT+AGG + chr7.1:26024294-26024313 None:intergenic 25.0%
!! TATTTTGTGAAATCATTGAC+CGG - chr7.1:26024384-26024403 MS.gene023893:CDS 25.0%
!!! TATAAGAATATAGTTCTGGA+GGG + chr7.1:26024341-26024360 None:intergenic 25.0%
AAAAGGATTCACTAGAGTTA+TGG + chr7.1:26023986-26024005 None:intergenic 30.0%
AGTTCCAATTTGAAAATGCA+GGG + chr7.1:26024459-26024478 None:intergenic 30.0%
ATGAAAAGATTCTTAATCGG+CGG - chr7.1:26024420-26024439 MS.gene023893:CDS 30.0%
CTCCAGAACTATATTCTTAT+AGG - chr7.1:26024340-26024359 MS.gene023893:CDS 30.0%
! GTTGCAGTGATTTACAATTT+TGG - chr7.1:26024102-26024121 MS.gene023893:CDS 30.0%
! TTTTTCCTACTATGAGAAGA+TGG - chr7.1:26024296-26024315 MS.gene023893:CDS 30.0%
!! ATTTTATTTGTCGGAAGTGT+TGG - chr7.1:26024537-26024556 MS.gene023893:CDS 30.0%
!! CTATAAGAATATAGTTCTGG+AGG + chr7.1:26024342-26024361 None:intergenic 30.0%
!! GAAGACAGCATTTTATTTGT+CGG - chr7.1:26024528-26024547 MS.gene023893:CDS 30.0%
AAATAAGCACGCCCATAATA+AGG + chr7.1:26024369-26024388 None:intergenic 35.0%
AAATTGTTGCATGCAGTTGA+AGG + chr7.1:26024700-26024719 None:intergenic 35.0%
AGAAGGATTGTTCAACTTGA+AGG + chr7.1:26024253-26024272 None:intergenic 35.0%
ATAATCACTTGGGCTTGTAA+TGG + chr7.1:26024079-26024098 None:intergenic 35.0%
CAGTTCCAATTTGAAAATGC+AGG + chr7.1:26024460-26024479 None:intergenic 35.0%
CATGAACAAACTTGAGAGTT+TGG - chr7.1:26024506-26024525 MS.gene023893:CDS 35.0%
CGCCTATAAGAATATAGTTC+TGG + chr7.1:26024345-26024364 None:intergenic 35.0%
CTGTGCTATCAACAAATATC+AGG + chr7.1:26024218-26024237 None:intergenic 35.0%
CTTATAGGCGTCCTTATTAT+GGG - chr7.1:26024355-26024374 MS.gene023893:CDS 35.0%
GTTCAACTTGAAGGATACAA+TGG + chr7.1:26024244-26024263 None:intergenic 35.0%
TAATCACTTGGGCTTGTAAT+GGG + chr7.1:26024078-26024097 None:intergenic 35.0%
TCAAATGAGTCATCAGAAGA+AGG + chr7.1:26024270-26024289 None:intergenic 35.0%
TCTTATAGGCGTCCTTATTA+TGG - chr7.1:26024354-26024373 MS.gene023893:CDS 35.0%
TTTCATCATCCATATGTCTC+CGG + chr7.1:26024406-26024425 None:intergenic 35.0%
! CAAACCCTGCATTTTCAAAT+TGG - chr7.1:26024452-26024471 MS.gene023893:CDS 35.0%
! CAACTGCATGCAACAATTTT+GGG - chr7.1:26024701-26024720 MS.gene023893:CDS 35.0%
! CTGCATTTTCAAATTGGAAC+TGG - chr7.1:26024458-26024477 MS.gene023893:CDS 35.0%
! TCAACTGCATGCAACAATTT+TGG - chr7.1:26024700-26024719 MS.gene023893:CDS 35.0%
!! AGTTCTGGAGGGAAAAAATA+TGG + chr7.1:26024330-26024349 None:intergenic 35.0%
!! TGCTTTCTTCAAGTTGGAAA+AGG - chr7.1:26024584-26024603 MS.gene023893:CDS 35.0%
AATCACTTGGGCTTGTAATG+GGG + chr7.1:26024077-26024096 None:intergenic 40.0%
AATCATTGACCGGAGACATA+TGG - chr7.1:26024394-26024413 MS.gene023893:CDS 40.0%
ACCTCTCGAATCTCTCAAAA+AGG - chr7.1:26024035-26024054 MS.gene023893:CDS 40.0%
ACTAGCCATCTTCTCATAGT+AGG + chr7.1:26024304-26024323 None:intergenic 40.0%
ACTGCAACCACATAATCACT+TGG + chr7.1:26024090-26024109 None:intergenic 40.0%
CTACACGAATCCAAAATGAC+TGG + chr7.1:26024152-26024171 None:intergenic 40.0%
CTGCAACCACATAATCACTT+GGG + chr7.1:26024089-26024108 None:intergenic 40.0%
GGAGCTATACTGCTCTTAAA+AGG + chr7.1:26024003-26024022 None:intergenic 40.0%
GGTTCTACCACAACTTAAGT+GGG - chr7.1:26024722-26024741 MS.gene023893:CDS 40.0%
TACAAGCCCAAGTGATTATG+TGG - chr7.1:26024080-26024099 MS.gene023893:CDS 40.0%
TTCCAACTTGAAGAAAGCAG+AGG + chr7.1:26024583-26024602 None:intergenic 40.0%
! AAAGACCAAGCCAGTCATTT+TGG - chr7.1:26024139-26024158 MS.gene023893:CDS 40.0%
!! ACCTTTTTGAGAGATTCGAG+AGG + chr7.1:26024039-26024058 None:intergenic 40.0%
!! TTTTTGAGAGATTCGAGAGG+TGG + chr7.1:26024036-26024055 None:intergenic 40.0%
!!! GTGTTCTAGTTTTCCACTCT+GGG + chr7.1:26024487-26024506 None:intergenic 40.0%
!!! TGTGTTCTAGTTTTCCACTC+TGG + chr7.1:26024488-26024507 None:intergenic 40.0%
AACTTGAAGAAAGCAGAGGC+TGG + chr7.1:26024579-26024598 None:intergenic 45.0%
AGCCTCTGCTTTCTTCAAGT+TGG - chr7.1:26024578-26024597 MS.gene023893:CDS 45.0%
GGGTTCTACCACAACTTAAG+TGG - chr7.1:26024721-26024740 MS.gene023893:CDS 45.0%
! CGAATCCAAAATGACTGGCT+TGG + chr7.1:26024147-26024166 None:intergenic 45.0%
!! CAGTTGAAGGAAAGCACTGA+AGG + chr7.1:26024687-26024706 None:intergenic 45.0%
TCGAGAGGTGGCAGACTAAT+GGG + chr7.1:26024024-26024043 None:intergenic 50.0%
TTCGAGAGGTGGCAGACTAA+TGG + chr7.1:26024025-26024044 None:intergenic 50.0%
TTGTGTTTGGGCTGTAGCCA+TGG - chr7.1:26023931-26023950 MS.gene023893:CDS 50.0%
! TGTAATGGGGTCAGCAGACA+AGG + chr7.1:26024064-26024083 None:intergenic 50.0%
!! TAGCCATGGTTGGCTTGCAT+TGG - chr7.1:26023945-26023964 MS.gene023893:CDS 50.0%
CCACCAATGCAAGCCAACCA+TGG + chr7.1:26023951-26023970 None:intergenic 55.0%
GTTTGGGCTGTAGCCATGGT+TGG - chr7.1:26023935-26023954 MS.gene023893:CDS 55.0%
TTGGAACTGGATGCCCAGAG+TGG - chr7.1:26024471-26024490 MS.gene023893:CDS 55.0%
!! CCATGGTTGGCTTGCATTGG+TGG - chr7.1:26023948-26023967 MS.gene023893:CDS 55.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 26023925 26024749 26023925 ID=MS.gene023893
chr7.1 mRNA 26023925 26024749 26023925 ID=MS.gene023893.t1;Parent=MS.gene023893
chr7.1 exon 26023925 26024749 26023925 ID=MS.gene023893.t1.exon1;Parent=MS.gene023893.t1
chr7.1 CDS 26023925 26024749 26023925 ID=cds.MS.gene023893.t1;Parent=MS.gene023893.t1
Gene Sequence

>MS.gene023893

ATGAAATTGTGTTTGGGCTGTAGCCATGGTTGGCTTGCATTGGTGGATGATAACAATGCCATAACTCTAGTGAATCCTTTTAAGAGCAGTATAGCTCCCATTAGTCTGCCACCTCTCGAATCTCTCAAAAAGGTTACCTTGTCTGCTGACCCCATTACAAGCCCAAGTGATTATGTGGTTGCAGTGATTTACAATTTTGGTTCTCTCGCTTTCAAAAGACCAAGCCAGTCATTTTGGATTCGTGTAGACACAAATGAATTTTCTTTCACTGATGTTGTATTTTATAAAGGCCTGATATTTGTTGATAGCACAGATACCATTGTATCCTTCAAGTTGAACAATCCTTCTTCTGATGACTCATTTGATCCTAATTTTTCCTACTATGAGAAGATGGCTAGTACTCCATATTTTTTCCCTCCAGAACTATATTCTTATAGGCGTCCTTATTATGGGCGTGCTTATTTTGTGAAATCATTGACCGGAGACATATGGATGATGAAAAGATTCTTAATCGGCGGAAATTTAATCAAACCCTGCATTTTCAAATTGGAACTGGATGCCCAGAGTGGAAAACTAGAACACATGAACAAACTTGAGAGTTTGGAAGACAGCATTTTATTTGTCGGAAGTGTTGGTGATTCAATATCTGTGCCAGCCTCTGCTTTCTTCAAGTTGGAAAAGGATTCAATTTATTTTGTTAATGGTATAGAGATAGATATCTATATCTTTAATGTGAAGGATGGAAGCGTTCAGAGATCACCTTCAGTGCTTTCCTTCAACTGCATGCAACAATTTTGGGTTCTACCACAACTTAAGTGGGATTGA
Protein sequence

>MS.gene023893.t1

MKLCLGCSHGWLALVDDNNAITLVNPFKSSIAPISLPPLESLKKVTLSADPITSPSDYVVAVIYNFGSLAFKRPSQSFWIRVDTNEFSFTDVVFYKGLIFVDSTDTIVSFKLNNPSSDDSFDPNFSYYEKMASTPYFFPPELYSYRRPYYGRAYFVKSLTGDIWMMKRFLIGGNLIKPCIFKLELDAQSGKLEHMNKLESLEDSILFVGSVGDSISVPASAFFKLEKDSIYFVNGIEIDIYIFNVKDGSVQRSPSVLSFNCMQQFWVLPQLKWD