AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene026187

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene026187.t1 MTR_1g038650 95.745 235 10 0 1 235 1 235 3.75e-132 372
MS.gene026187.t1 MTR_1g114380 60.159 251 54 6 16 233 18 255 5.87e-83 248
MS.gene026187.t1 MTR_2g006150 75.000 84 18 1 20 100 115 198 1.48e-36 134
MS.gene026187.t1 MTR_5g039600 78.205 78 12 1 28 100 58 135 1.56e-36 133
MS.gene026187.t1 MTR_2g006150 75.000 84 18 1 20 100 115 198 1.66e-36 134
MS.gene026187.t1 MTR_7g028160 54.400 125 53 1 1 121 15 139 3.29e-36 129
MS.gene026187.t1 MTR_4g108370 70.930 86 21 1 19 100 80 165 8.94e-36 131
MS.gene026187.t1 MTR_1g063870 78.082 73 13 1 25 94 39 111 6.06e-35 124
MS.gene026187.t1 MTR_1g101810 65.934 91 30 1 5 94 36 126 1.06e-32 121
MS.gene026187.t1 MTR_1g101810 65.934 91 30 1 5 94 66 156 2.67e-32 120
MS.gene026187.t1 MTR_8g033070 72.603 73 20 0 28 100 76 148 2.31e-31 117
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene026187.t1 AT5G23280 55.906 254 62 6 10 235 19 250 3.71e-74 225
MS.gene026187.t1 AT5G08330 57.895 228 57 8 27 233 26 235 8.30e-63 196
MS.gene026187.t1 AT1G72010 81.944 72 13 0 29 100 60 131 4.50e-37 134
MS.gene026187.t1 AT1G69690 68.889 90 23 1 16 100 31 120 5.17e-37 132
MS.gene026187.t1 AT3G47620 75.610 82 15 1 24 100 104 185 1.45e-36 134
MS.gene026187.t1 AT1G58100 84.058 69 11 0 32 100 60 128 6.98e-36 131
MS.gene026187.t1 AT1G35560 83.333 72 12 0 29 100 52 123 8.31e-35 127
MS.gene026187.t1 AT3G27010 63.000 100 28 2 3 93 40 139 1.71e-33 123
MS.gene026187.t1 AT3G27010 63.000 100 28 2 3 93 40 139 1.71e-33 123
MS.gene026187.t1 AT5G51910 67.059 85 28 0 28 112 53 137 3.64e-32 119
MS.gene026187.t1 AT5G51910 67.059 85 28 0 28 112 53 137 3.64e-32 119
MS.gene026187.t1 AT2G45680 76.471 68 16 0 27 94 70 137 1.23e-31 119
MS.gene026187.t1 AT5G41030 67.164 67 22 0 28 94 64 130 4.38e-28 107
MS.gene026187.t1 AT2G37000 75.000 60 15 0 32 91 43 102 4.29e-27 103
MS.gene026187.t1 AT3G45150 52.055 73 35 0 33 105 18 90 7.21e-20 83.6
MS.gene026187.t1 AT1G58100 55.072 69 7 1 32 100 60 104 5.00e-15 73.6

Find 62 sgRNAs with CRISPR-Local

Find 71 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACACGTGCGGCGCAGATTA+TGG 0.191163 1.2:+23731521 None:intergenic
CTACTGCTCCGCCGGGGTTT+TGG 0.252668 1.2:-23731278 MS.gene026187:CDS
CAACCTTCTCCGTTTATTCT+TGG 0.258658 1.2:-23731348 MS.gene026187:CDS
AATTTGTTGGCTTCATTGTC+TGG 0.298075 1.2:-23731024 MS.gene026187:CDS
GCTGCTGGTGGTGCTGGTGC+TGG 0.299192 1.2:+23731118 None:intergenic
GTTGATGCTGCTGGTGGTGC+TGG 0.308604 1.2:+23731112 None:intergenic
GAAGCTTCCGCGGCGAGGTT+AGG 0.328795 1.2:-23731069 MS.gene026187:CDS
GACCAAGCTCACGTGTTAAC+TGG 0.329708 1.2:+23731496 None:intergenic
GGTGGTGCTGGTGCTGGTGC+TGG 0.354651 1.2:+23731124 None:intergenic
TCCTGGTCATCTGAATTTGT+TGG 0.361921 1.2:-23731037 MS.gene026187:CDS
CTTGTTGCTGTTGATGCTGC+TGG 0.390685 1.2:+23731103 None:intergenic
ACACGTGCGGCGCAGATTAT+GGG 0.390746 1.2:+23731522 None:intergenic
TGCTGCACCTACTGCTCCGC+CGG 0.410157 1.2:-23731286 MS.gene026187:CDS
GAAAGAAGCAGGTGTAGTTC+CGG 0.413992 1.2:+23731401 None:intergenic
AAGCTTCCGCGGCGAGGTTA+GGG 0.415378 1.2:-23731068 MS.gene026187:CDS
TGATGATGGTGATGCTGTTT+CGG 0.418538 1.2:-23731310 MS.gene026187:CDS
TCTGGTGGGAATGGAAATTC+TGG 0.419287 1.2:-23731006 MS.gene026187:CDS
AACGGAGAAGGTTGAAGAAA+AGG 0.424552 1.2:+23731357 None:intergenic
TGCTGCTGCTCAACCGCCGC+CGG 0.429682 1.2:-23731223 MS.gene026187:CDS
GCTGCTCAACCGCCGCCGGA+AGG 0.449544 1.2:-23731219 MS.gene026187:CDS
CTCCAAAGCTGAGCAAAATC+CGG 0.465288 1.2:+23731252 None:intergenic
AAACGTTTACCAAGAATAAA+CGG 0.469719 1.2:+23731339 None:intergenic
TCAACAGCAACAAGGTTCAA+TGG 0.473044 1.2:-23731094 MS.gene026187:CDS
ATCATCGCCGCCACCGGTAC+CGG 0.476622 1.2:-23731420 MS.gene026187:CDS
TGTAGTTCCGGTACCGGTGG+CGG 0.480445 1.2:+23731413 None:intergenic
GCTGCACCTACTGCTCCGCC+GGG 0.481411 1.2:-23731285 MS.gene026187:CDS
GCTTCATTGTCTGGTGGGAA+TGG 0.484637 1.2:-23731015 MS.gene026187:CDS
CAACAGCAACAAGGTTCAAT+GGG 0.485127 1.2:-23731093 MS.gene026187:CDS
AGGTTAGGGAATTATCTTCC+TGG 0.487752 1.2:-23731054 MS.gene026187:CDS
AGCAGGTGTAGTTCCGGTAC+CGG 0.496500 1.2:+23731407 None:intergenic
AGAAGTGGGTTCTACTAGAT+CGG 0.502592 1.2:+23731626 None:intergenic
GAAAGAGAAGAGAAAGAAGC+AGG 0.509335 1.2:+23731390 None:intergenic
TGATCGACGGTTCAGCTTGA+CGG 0.511819 1.2:+23731439 None:intergenic
TTCCAGTTAACACGTGAGCT+TGG 0.518020 1.2:-23731498 MS.gene026187:CDS
TTCCGTCTACTTTACTGTGA+CGG 0.524053 1.2:+23731565 None:intergenic
AAATCCGGCCGCCAAAACCC+CGG 0.528380 1.2:+23731267 None:intergenic
TGTTGGCTTCATTGTCTGGT+GGG 0.531348 1.2:-23731020 MS.gene026187:CDS
CCGTCGATCATCGCCGCCAC+CGG 0.537613 1.2:-23731426 MS.gene026187:CDS
CACAGTAAAGTAGACGGAAG+AGG 0.537838 1.2:-23731561 MS.gene026187:CDS
CAAAACCCCGGCGGAGCAGT+AGG 0.540114 1.2:+23731279 None:intergenic
TTGTTGGCTTCATTGTCTGG+TGG 0.543932 1.2:-23731021 MS.gene026187:CDS
GGGAATGGAAATTCTGGTCG+TGG 0.548380 1.2:-23731000 MS.gene026187:CDS
TTCTACTAGATCGGTTGTTG+TGG 0.553500 1.2:+23731635 None:intergenic
GCCAACAAATTCAGATGACC+AGG 0.560326 1.2:+23731036 None:intergenic
CCGGTGGCGGCGATGATCGA+CGG 0.572268 1.2:+23731426 None:intergenic
TGATAGTTGTTGTTTCCTTG+TGG 0.582444 1.2:+23731658 None:intergenic
GTTGCTGTTGATGCTGCTGG+TGG 0.588478 1.2:+23731106 None:intergenic
TTCAATGGGTGAAGCTTCCG+CGG 0.595814 1.2:-23731079 MS.gene026187:CDS
TTACCAAGAATAAACGGAGA+AGG 0.605589 1.2:+23731345 None:intergenic
AGGTGTAGTTCCGGTACCGG+TGG 0.608264 1.2:+23731410 None:intergenic
CCATTCGATAGTTTGACCGT+CGG 0.631339 1.2:+23731467 None:intergenic
ACCTCAAATGTCTAACCACA+AGG 0.638869 1.2:-23731673 None:intergenic
GACCGTCACAGTAAAGTAGA+CGG 0.641647 1.2:-23731567 MS.gene026187:CDS
CAGCAGCATCAACAGCAACA+AGG 0.643976 1.2:-23731102 MS.gene026187:CDS
CCGACGGTCAAACTATCGAA+TGG 0.646959 1.2:-23731467 MS.gene026187:CDS
AAACGTTTACGTGATGATGA+TGG 0.660458 1.2:-23731324 MS.gene026187:CDS
GAGCTTGGTCATAAATCCGA+CGG 0.680249 1.2:-23731483 MS.gene026187:CDS
CTGCACCTACTGCTCCGCCG+GGG 0.682389 1.2:-23731284 MS.gene026187:CDS
TGGGTGAAGCTTCCGCGGCG+AGG 0.688189 1.2:-23731074 MS.gene026187:CDS
TCCGGCCGCCAAAACCCCGG+CGG 0.699527 1.2:+23731270 None:intergenic
TGTTAACTGGAAAACACGTG+CGG 0.728936 1.2:+23731509 None:intergenic
ATAATTCCCTAACCTCGCCG+CGG 0.758456 1.2:+23731062 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AAACGTTTACCAAGAATAAA+CGG + chr1.2:23731311-23731330 None:intergenic 25.0%
TGAGAAACAGAAAAACCTTC+CGG + chr1.2:23731446-23731465 None:intergenic 35.0%
TTACCAAGAATAAACGGAGA+AGG + chr1.2:23731305-23731324 None:intergenic 35.0%
! AAACGTTTACGTGATGATGA+TGG - chr1.2:23731323-23731342 MS.gene026187:CDS 35.0%
!! AATTTGTTGGCTTCATTGTC+TGG - chr1.2:23731623-23731642 MS.gene026187:CDS 35.0%
!! TGATAGTTGTTGTTTCCTTG+TGG + chr1.2:23730992-23731011 None:intergenic 35.0%
!!! GTTAGAGTGTTTTGAGAAGT+GGG + chr1.2:23731038-23731057 None:intergenic 35.0%
!!! TGTTAGAGTGTTTTGAGAAG+TGG + chr1.2:23731039-23731058 None:intergenic 35.0%
AACGGAGAAGGTTGAAGAAA+AGG + chr1.2:23731293-23731312 None:intergenic 40.0%
AGGTTAGGGAATTATCTTCC+TGG - chr1.2:23731593-23731612 MS.gene026187:CDS 40.0%
CAACAGCAACAAGGTTCAAT+GGG - chr1.2:23731554-23731573 MS.gene026187:CDS 40.0%
CAACCTTCTCCGTTTATTCT+TGG - chr1.2:23731299-23731318 MS.gene026187:CDS 40.0%
GAAAGAGAAGAGAAAGAAGC+AGG + chr1.2:23731260-23731279 None:intergenic 40.0%
TCAACAGCAACAAGGTTCAA+TGG - chr1.2:23731553-23731572 MS.gene026187:CDS 40.0%
TCCTGGTCATCTGAATTTGT+TGG - chr1.2:23731610-23731629 MS.gene026187:CDS 40.0%
TGTTAACTGGAAAACACGTG+CGG + chr1.2:23731141-23731160 None:intergenic 40.0%
TTCCGTCTACTTTACTGTGA+CGG + chr1.2:23731085-23731104 None:intergenic 40.0%
TTCTACTAGATCGGTTGTTG+TGG + chr1.2:23731015-23731034 None:intergenic 40.0%
! AGAAGTGGGTTCTACTAGAT+CGG + chr1.2:23731024-23731043 None:intergenic 40.0%
! TTACTGTGACGGTCTTTTGA+CGG + chr1.2:23731074-23731093 None:intergenic 40.0%
!! TGATGATGGTGATGCTGTTT+CGG - chr1.2:23731337-23731356 MS.gene026187:CDS 40.0%
CACAGTAAAGTAGACGGAAG+AGG - chr1.2:23731086-23731105 MS.gene026187:CDS 45.0%
CCATTCGATAGTTTGACCGT+CGG + chr1.2:23731183-23731202 None:intergenic 45.0%
CTCCAAAGCTGAGCAAAATC+CGG + chr1.2:23731398-23731417 None:intergenic 45.0%
GAAACAGAAAAACCTTCCGG+CGG + chr1.2:23731443-23731462 None:intergenic 45.0%
GAAAGAAGCAGGTGTAGTTC+CGG + chr1.2:23731249-23731268 None:intergenic 45.0%
GACCGTCACAGTAAAGTAGA+CGG - chr1.2:23731080-23731099 MS.gene026187:CDS 45.0%
GAGCTTGGTCATAAATCCGA+CGG - chr1.2:23731164-23731183 MS.gene026187:CDS 45.0%
GCCAACAAATTCAGATGACC+AGG + chr1.2:23731614-23731633 None:intergenic 45.0%
TCTGGTGGGAATGGAAATTC+TGG - chr1.2:23731641-23731660 MS.gene026187:CDS 45.0%
TTCCAGTTAACACGTGAGCT+TGG - chr1.2:23731149-23731168 MS.gene026187:CDS 45.0%
!! TGTTGGCTTCATTGTCTGGT+GGG - chr1.2:23731627-23731646 MS.gene026187:CDS 45.0%
!! TTGTTGGCTTCATTGTCTGG+TGG - chr1.2:23731626-23731645 MS.gene026187:CDS 45.0%
ATAATTCCCTAACCTCGCCG+CGG + chr1.2:23731588-23731607 None:intergenic 50.0%
CAGCAGCATCAACAGCAACA+AGG - chr1.2:23731545-23731564 MS.gene026187:CDS 50.0%
CCGACGGTCAAACTATCGAA+TGG - chr1.2:23731180-23731199 MS.gene026187:CDS 50.0%
GACCAAGCTCACGTGTTAAC+TGG + chr1.2:23731154-23731173 None:intergenic 50.0%
GCTTCATTGTCTGGTGGGAA+TGG - chr1.2:23731632-23731651 MS.gene026187:CDS 50.0%
GGGAATGGAAATTCTGGTCG+TGG - chr1.2:23731647-23731666 MS.gene026187:CDS 50.0%
TGATCGACGGTTCAGCTTGA+CGG + chr1.2:23731211-23731230 None:intergenic 50.0%
TTCAATGGGTGAAGCTTCCG+CGG - chr1.2:23731568-23731587 MS.gene026187:CDS 50.0%
! CTTGTTGCTGTTGATGCTGC+TGG + chr1.2:23731547-23731566 None:intergenic 50.0%
AACACGTGCGGCGCAGATTA+TGG + chr1.2:23731129-23731148 None:intergenic 55.0%
ACACGTGCGGCGCAGATTAT+GGG + chr1.2:23731128-23731147 None:intergenic 55.0%
ACAGAAAAACCTTCCGGCGG+CGG + chr1.2:23731440-23731459 None:intergenic 55.0%
AGCAGGTGTAGTTCCGGTAC+CGG + chr1.2:23731243-23731262 None:intergenic 55.0%
! CTGTGACGGTCTTTTGACGG+CGG + chr1.2:23731071-23731090 None:intergenic 55.0%
! GGCCGGATTTTGCTCAGCTT+TGG - chr1.2:23731393-23731412 MS.gene026187:CDS 55.0%
! GTTGCTGTTGATGCTGCTGG+TGG + chr1.2:23731544-23731563 None:intergenic 55.0%
AAATCCGGCCGCCAAAACCC+CGG + chr1.2:23731383-23731402 None:intergenic 60.0%
AAGCTTCCGCGGCGAGGTTA+GGG - chr1.2:23731579-23731598 MS.gene026187:CDS 60.0%
! AGGTGTAGTTCCGGTACCGG+TGG + chr1.2:23731240-23731259 None:intergenic 60.0%
! GTTGATGCTGCTGGTGGTGC+TGG + chr1.2:23731538-23731557 None:intergenic 60.0%
!! TGTAGTTCCGGTACCGGTGG+CGG + chr1.2:23731237-23731256 None:intergenic 60.0%
ATCATCGCCGCCACCGGTAC+CGG - chr1.2:23731227-23731246 MS.gene026187:CDS 65.0%
CAAAACCCCGGCGGAGCAGT+AGG + chr1.2:23731371-23731390 None:intergenic 65.0%
GAAGCTTCCGCGGCGAGGTT+AGG - chr1.2:23731578-23731597 MS.gene026187:CDS 65.0%
TGCTGCACCTACTGCTCCGC+CGG - chr1.2:23731361-23731380 MS.gene026187:CDS 65.0%
! CTACTGCTCCGCCGGGGTTT+TGG - chr1.2:23731369-23731388 MS.gene026187:CDS 65.0%
CCGTCGATCATCGCCGCCAC+CGG - chr1.2:23731221-23731240 MS.gene026187:CDS 70.0%
CTGCACCTACTGCTCCGCCG+GGG - chr1.2:23731363-23731382 MS.gene026187:CDS 70.0%
GCTGCACCTACTGCTCCGCC+GGG - chr1.2:23731362-23731381 MS.gene026187:CDS 70.0%
TGCTGCTGCTCAACCGCCGC+CGG - chr1.2:23731424-23731443 MS.gene026187:CDS 70.0%
TGGGTGAAGCTTCCGCGGCG+AGG - chr1.2:23731573-23731592 MS.gene026187:CDS 70.0%
! CCGGTGGCGGCGATGATCGA+CGG + chr1.2:23731224-23731243 None:intergenic 70.0%
!! CTGCTCCGCCGGGGTTTTGG+CGG - chr1.2:23731372-23731391 MS.gene026187:CDS 70.0%
!! GCTGCTGGTGGTGCTGGTGC+TGG + chr1.2:23731532-23731551 None:intergenic 70.0%
!! GGTGGTGCTGGTGCTGGTGC+TGG + chr1.2:23731526-23731545 None:intergenic 70.0%
GCTGCTCAACCGCCGCCGGA+AGG - chr1.2:23731428-23731447 MS.gene026187:CDS 75.0%
TCCGGCCGCCAAAACCCCGG+CGG + chr1.2:23731380-23731399 None:intergenic 75.0%
!! TCCGCCGGGGTTTTGGCGGC+CGG - chr1.2:23731376-23731395 MS.gene026187:CDS 75.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 23730981 23731688 23730981 ID=MS.gene026187
chr1.2 mRNA 23730981 23731688 23730981 ID=MS.gene026187.t1;Parent=MS.gene026187
chr1.2 exon 23730981 23731688 23730981 ID=MS.gene026187.t1.exon1;Parent=MS.gene026187.t1
chr1.2 CDS 23730981 23731688 23730981 ID=cds.MS.gene026187.t1;Parent=MS.gene026187.t1
Gene Sequence

>MS.gene026187

ATGTCTAACCACAAGGAAACAACAACTATCACCACAACAACCGATCTAGTAGAACCCACTTCTCAAAACACTCTAACAGTAAAAAAACCGCCGTCAAAAGACCGTCACAGTAAAGTAGACGGAAGAGGAAGACGCATAAGAATGCCCATAATCTGCGCCGCACGTGTTTTCCAGTTAACACGTGAGCTTGGTCATAAATCCGACGGTCAAACTATCGAATGGCTTCTCCGTCAAGCTGAACCGTCGATCATCGCCGCCACCGGTACCGGAACTACACCTGCTTCTTTCTCTTCTCTTTCTGAGCATAAACCTTTTCTTCAACCTTCTCCGTTTATTCTTGGTAAACGTTTACGTGATGATGATGGTGATGCTGTTTCGGTTGCTGCACCTACTGCTCCGCCGGGGTTTTGGCGGCCGGATTTTGCTCAGCTTTGGAGCTTTGCTGCTGCTGCTCAACCGCCGCCGGAAGGTTTTTCTGTTTCTCAGCATAATTCATTGTTTCATCATCAACAGCAACAACAACAACAACAGCAGCAACAACACCAGCACCAGCACCAGCACCACCAGCAGCATCAACAGCAACAAGGTTCAATGGGTGAAGCTTCCGCGGCGAGGTTAGGGAATTATCTTCCTGGTCATCTGAATTTGTTGGCTTCATTGTCTGGTGGGAATGGAAATTCTGGTCGTGGAGATGACGAAGATCGTTGA
Protein sequence

>MS.gene026187.t1

MSNHKETTTITTTTDLVEPTSQNTLTVKKPPSKDRHSKVDGRGRRIRMPIICAARVFQLTRELGHKSDGQTIEWLLRQAEPSIIAATGTGTTPASFSSLSEHKPFLQPSPFILGKRLRDDDGDAVSVAAPTAPPGFWRPDFAQLWSFAAAAQPPPEGFSVSQHNSLFHHQQQQQQQQQQQHQHQHQHHQQHQQQQGSMGEASAARLGNYLPGHLNLLASLSGGNGNSGRGDDEDR