AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene016330


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene016330.t1 MTR_8g045490 91.667 156 13 0 1 156 1 156 1.94e-104 295
MS.gene016330.t1 MTR_8g045520 80.892 157 29 1 1 156 1 157 9.97e-92 263
MS.gene016330.t1 MTR_8g045400 77.707 157 33 2 1 156 1 156 3.93e-87 251
MS.gene016330.t1 MTR_8g045570 75.658 152 37 0 1 152 1 152 2.26e-85 247
MS.gene016330.t1 MTR_8g045695 73.856 153 39 1 1 153 1 152 1.53e-82 240
MS.gene016330.t1 MTR_8g045555 74.342 152 39 0 1 152 1 152 2.34e-82 239
MS.gene016330.t1 MTR_8g045300 70.513 156 45 1 1 155 1 156 1.71e-81 237
MS.gene016330.t1 MTR_8g045735 69.935 153 45 1 1 153 1 152 9.63e-79 230
MS.gene016330.t1 MTR_8g045665 69.935 153 45 1 1 153 1 152 7.47e-77 226
MS.gene016330.t1 MTR_8g045640 68.627 153 47 1 1 153 1 152 7.87e-75 220
MS.gene016330.t1 MTR_8g045560 67.320 153 49 1 1 153 1 152 1.89e-73 217
MS.gene016330.t1 MTR_1g030810 42.484 153 85 2 1 151 1 152 2.15e-39 130
MS.gene016330.t1 MTR_1g030820 39.869 153 89 2 1 151 1 152 5.99e-39 129
MS.gene016330.t1 MTR_1g030840 36.538 156 91 4 1 149 1 155 1.07e-27 101
MS.gene016330.t1 MTR_8g012550 34.932 146 92 3 6 150 8 151 2.85e-27 100
MS.gene016330.t1 MTR_1g031640 37.838 148 83 5 7 152 7 147 1.03e-24 93.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene016330.t1 AT5G28010 35.570 149 93 3 3 149 15 162 1.42e-25 95.9
MS.gene016330.t1 AT5G28010 35.570 149 93 3 3 149 15 162 1.42e-25 95.9
MS.gene016330.t1 AT1G70890 36.913 149 91 3 3 149 7 154 5.54e-25 94.4
MS.gene016330.t1 AT1G70830 34.228 149 95 3 3 149 22 169 9.54e-23 89.0
MS.gene016330.t1 AT1G70830 34.228 149 95 3 3 149 22 169 1.66e-22 89.0
MS.gene016330.t1 AT1G70840 32.215 149 98 3 3 149 20 167 3.83e-22 87.4
MS.gene016330.t1 AT1G70830 34.228 149 95 3 3 149 22 169 5.42e-22 89.0
MS.gene016330.t1 AT1G70830 34.228 149 95 3 3 149 22 169 1.57e-21 89.0
MS.gene016330.t1 AT1G70830 32.886 149 97 3 3 149 184 331 5.84e-20 84.7
MS.gene016330.t1 AT5G28000 32.215 149 98 3 3 149 13 160 1.92e-21 85.5
MS.gene016330.t1 AT1G70870 35.294 153 82 4 1 151 1 138 1.83e-20 82.0
MS.gene016330.t1 AT1G70830 32.886 149 97 3 3 149 137 284 2.49e-20 85.1
MS.gene016330.t1 AT1G70850 32.215 149 98 3 3 149 9 156 2.55e-20 84.0
MS.gene016330.t1 AT1G70850 32.215 149 98 3 3 149 9 156 7.07e-20 84.3
MS.gene016330.t1 AT1G70850 32.374 139 91 3 13 149 175 312 1.38e-18 80.9
MS.gene016330.t1 AT1G70850 32.215 149 98 3 3 149 9 156 7.07e-20 84.3
MS.gene016330.t1 AT1G70850 32.374 139 91 3 13 149 175 312 1.38e-18 80.9
MS.gene016330.t1 AT1G23120 30.070 143 95 3 7 149 7 144 1.25e-19 80.1
MS.gene016330.t1 AT4G23670 33.987 153 98 3 1 152 1 151 1.33e-19 80.1
MS.gene016330.t1 AT1G23130 29.730 148 102 2 3 149 10 156 2.74e-19 79.7
MS.gene016330.t1 AT1G23120 30.070 143 95 3 7 149 57 194 4.20e-19 80.1
MS.gene016330.t1 AT1G70880 30.201 149 101 3 3 149 8 155 1.26e-18 77.8
MS.gene016330.t1 AT2G01520 31.373 153 102 3 1 152 1 151 1.21e-17 75.1
MS.gene016330.t1 AT4G23680 31.373 153 102 3 1 152 1 151 4.69e-17 73.6
MS.gene016330.t1 AT1G14930 31.677 161 93 5 1 153 1 152 2.14e-16 72.0
MS.gene016330.t1 AT2G01530 31.373 153 102 3 1 152 1 151 4.21e-16 71.2
MS.gene016330.t1 AT4G14060 32.026 153 101 3 1 152 1 151 4.99e-16 70.9
MS.gene016330.t1 AT1G35260 28.276 145 100 3 7 149 6 148 7.88e-16 70.5
MS.gene016330.t1 AT1G24020 32.051 156 104 2 1 155 1 155 6.65e-15 68.2
MS.gene016330.t1 AT1G24020 32.051 156 104 2 1 155 1 155 6.65e-15 68.2
MS.gene016330.t1 AT1G30990 31.333 150 99 4 1 149 1 147 4.67e-14 65.9
MS.gene016330.t1 AT1G14940 30.000 150 102 3 1 149 1 148 5.61e-13 63.2
MS.gene016330.t1 AT3G26460 31.169 154 102 4 1 152 1 152 5.87e-13 62.8
MS.gene016330.t1 AT1G14950 28.289 152 106 3 1 151 1 150 2.17e-12 61.6
MS.gene016330.t1 AT1G35310 24.638 138 101 3 13 149 12 147 3.38e-11 58.2

Find 26 sgRNAs with CRISPR-Local

Find 61 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGGCACTGCTGCTGCTAAA+TGG 0.310932 8.2:+56524163 MS.gene016330:CDS
CACCCTTATCAATGACTTCA+AGG 0.380806 8.2:-56524140 None:intergenic
TTATAGAGCTATCTTTGCTT+TGG 0.392094 8.2:-56524283 None:intergenic
AAACACTGGACTTACGTCAT+AGG 0.436108 8.2:+56523223 MS.gene016330:CDS
TTCTAAGAAATGGTGCTCTC+TGG 0.436928 8.2:+56523049 None:intergenic
CATCCTTGAAGTCATTGATA+AGG 0.445764 8.2:+56524137 MS.gene016330:CDS
AAGTATTCCATGTAGCCATT+TGG 0.448595 8.2:-56524225 None:intergenic
AACTTCATGAAGGTGAAGAT+TGG 0.478377 8.2:+56523182 MS.gene016330:CDS
GGTAAGCTCAGTACTGAAGT+TGG 0.490802 8.2:+56523070 MS.gene016330:CDS
ATCCTTGAAGTCATTGATAA+GGG 0.494628 8.2:+56524138 MS.gene016330:CDS
AGATATTGATGAGCACTATA+AGG 0.500590 8.2:+56524104 MS.gene016330:CDS
GAACAGATTGTAGAACTTGT+CGG 0.501167 8.2:-56523107 None:intergenic
TATTCCATGTAGCCATTTGG+AGG 0.517921 8.2:-56524222 None:intergenic
AGATTGGCATCACACTGATT+CGG 0.519723 8.2:+56523198 MS.gene016330:CDS
AATGGCTACATGGAATACTT+TGG 0.525683 8.2:+56524228 MS.gene016330:CDS
TGACCCTCCAAATGGCTACA+TGG 0.526835 8.2:+56524218 MS.gene016330:CDS
GAGGATATTGACCCTCCAAA+TGG 0.540200 8.2:+56524210 MS.gene016330:CDS
TATGATGAACTCTTTCACAA+AGG 0.552779 8.2:-56523156 None:intergenic
GAAGTCATTGATAAGGGTGA+TGG 0.579318 8.2:+56524144 MS.gene016330:CDS
ATCATAATTCACAGATGGCA+AGG 0.582682 8.2:+56524008 MS.gene016330:intron
CATCATACAAAACTTCATGA+AGG 0.606616 8.2:+56523172 MS.gene016330:CDS
ACACTGATTCGGTTAAACAC+TGG 0.614381 8.2:+56523209 MS.gene016330:CDS
ATTCCATGTAGCCATTTGGA+GGG 0.625101 8.2:-56524221 None:intergenic
AGATTGTAGAACTTGTCGGC+GGG 0.646397 8.2:-56523103 None:intergenic
TGAATATGAAAAGATCAATG+AGG 0.667026 8.2:+56524191 MS.gene016330:CDS
CAGATTGTAGAACTTGTCGG+CGG 0.688816 8.2:-56523104 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTAAATAAGATAATGATT+TGG - chr8.2:56523285-56523304 None:intergenic 10.0%
!! AGGAATAATAAATATTTATA+AGG - chr8.2:56523853-56523872 None:intergenic 10.0%
!!! ATAGTTTATTTGTTAAAAAA+TGG + chr8.2:56523917-56523936 MS.gene016330:intron 10.0%
!!! TAGTTTATTTGTTAAAAAAT+GGG + chr8.2:56523918-56523937 MS.gene016330:intron 10.0%
!! AAAAAAAATCAACAATCATT+TGG + chr8.2:56523610-56523629 MS.gene016330:intron 15.0%
!! AAAAAAATCAACAATCATTT+GGG + chr8.2:56523611-56523630 MS.gene016330:intron 15.0%
!! ACAAATAAAAATGAAAACTT+TGG - chr8.2:56523972-56523991 None:intergenic 15.0%
!!! TGTTGATTTTTTTTGTCATA+AGG - chr8.2:56523604-56523623 None:intergenic 20.0%
! AAAAACACTTATAAGCTCTT+TGG + chr8.2:56524078-56524097 MS.gene016330:CDS 25.0%
! AACCACAGTTATTCTTTATA+TGG - chr8.2:56523828-56523847 None:intergenic 25.0%
! AGATTATGAGATCTCAAAAA+TGG + chr8.2:56523707-56523726 MS.gene016330:intron 25.0%
! ATAAGAAAGAAACAAGTACA+TGG + chr8.2:56523391-56523410 MS.gene016330:intron 25.0%
! TGAATATGAAAAGATCAATG+AGG + chr8.2:56524191-56524210 MS.gene016330:CDS 25.0%
! TTGGGAAGAAAAAAAAATCA+GGG - chr8.2:56523474-56523493 None:intergenic 25.0%
! TTTGGGAAGAAAAAAAAATC+AGG - chr8.2:56523475-56523494 None:intergenic 25.0%
!! CTATCTTGAAAATGGTTTTT+GGG - chr8.2:56523492-56523511 None:intergenic 25.0%
!! TCTATCTTGAAAATGGTTTT+TGG - chr8.2:56523493-56523512 None:intergenic 25.0%
AACATAGTCAAAAGTAGAAG+AGG - chr8.2:56523535-56523554 None:intergenic 30.0%
AGATATTGATGAGCACTATA+AGG + chr8.2:56524104-56524123 MS.gene016330:CDS 30.0%
AGCCATATAAAGAATAACTG+TGG + chr8.2:56523823-56523842 MS.gene016330:intron 30.0%
ATCCTTGAAGTCATTGATAA+GGG + chr8.2:56524138-56524157 MS.gene016330:CDS 30.0%
CATCATACAAAACTTCATGA+AGG + chr8.2:56523172-56523191 MS.gene016330:CDS 30.0%
TACATTCTACAAACCAAACA+TGG + chr8.2:56523444-56523463 MS.gene016330:intron 30.0%
TATGATGAACTCTTTCACAA+AGG - chr8.2:56523159-56523178 None:intergenic 30.0%
TGGGAAGAAAAAAAAATCAG+GGG - chr8.2:56523473-56523492 None:intergenic 30.0%
TTATAGAGCTATCTTTGCTT+TGG - chr8.2:56524286-56524305 None:intergenic 30.0%
! TGAAGCATCTATCTTGAAAA+TGG - chr8.2:56523500-56523519 None:intergenic 30.0%
! TTTTTGTCATAAGGTTCTCT+GGG - chr8.2:56523595-56523614 None:intergenic 30.0%
!! CTACTTTTGACTATGTTGAA+CGG + chr8.2:56523538-56523557 MS.gene016330:intron 30.0%
!! TAATGATTTGGTTATCGATC+AGG - chr8.2:56523273-56523292 None:intergenic 30.0%
!! TACTTTTGACTATGTTGAAC+GGG + chr8.2:56523539-56523558 MS.gene016330:intron 30.0%
!!! TTTTTTGTCATAAGGTTCTC+TGG - chr8.2:56523596-56523615 None:intergenic 30.0%
AACTTCATGAAGGTGAAGAT+TGG + chr8.2:56523182-56523201 MS.gene016330:CDS 35.0%
AAGTATTCCATGTAGCCATT+TGG - chr8.2:56524228-56524247 None:intergenic 35.0%
AATGGCTACATGGAATACTT+TGG + chr8.2:56524228-56524247 MS.gene016330:CDS 35.0%
ATAGTCAAAAGTAGAAGAGG+TGG - chr8.2:56523532-56523551 None:intergenic 35.0%
ATCATAATTCACAGATGGCA+AGG + chr8.2:56524008-56524027 MS.gene016330:intron 35.0%
ATCTGTGAATTATGATGGCA+CGG - chr8.2:56524004-56524023 None:intergenic 35.0%
CATCCTTGAAGTCATTGATA+AGG + chr8.2:56524137-56524156 MS.gene016330:CDS 35.0%
GAACAGATTGTAGAACTTGT+CGG - chr8.2:56523110-56523129 None:intergenic 35.0%
TTGCCATCTGTGAATTATGA+TGG - chr8.2:56524009-56524028 None:intergenic 35.0%
! TTTTGTCATAAGGTTCTCTG+GGG - chr8.2:56523594-56523613 None:intergenic 35.0%
AAACACTGGACTTACGTCAT+AGG + chr8.2:56523223-56523242 MS.gene016330:CDS 40.0%
AAATCAGGGGTAACCATGTT+TGG - chr8.2:56523460-56523479 None:intergenic 40.0%
ATTCCATGTAGCCATTTGGA+GGG - chr8.2:56524224-56524243 None:intergenic 40.0%
CACCCTTATCAATGACTTCA+AGG - chr8.2:56524143-56524162 None:intergenic 40.0%
GAAGTCATTGATAAGGGTGA+TGG + chr8.2:56524144-56524163 MS.gene016330:CDS 40.0%
GTGCCATCATAATTCACAGA+TGG + chr8.2:56524003-56524022 MS.gene016330:intron 40.0%
TATTCCATGTAGCCATTTGG+AGG - chr8.2:56524225-56524244 None:intergenic 40.0%
TCTGTGAATTATGATGGCAC+GGG - chr8.2:56524003-56524022 None:intergenic 40.0%
! AGATTGGCATCACACTGATT+CGG + chr8.2:56523198-56523217 MS.gene016330:CDS 40.0%
! ATAAGGTTCTCTGGGGAATA+TGG - chr8.2:56523587-56523606 None:intergenic 40.0%
!! ACACTGATTCGGTTAAACAC+TGG + chr8.2:56523209-56523228 MS.gene016330:CDS 40.0%
AGATTGTAGAACTTGTCGGC+GGG - chr8.2:56523106-56523125 None:intergenic 45.0%
CAGATTGTAGAACTTGTCGG+CGG - chr8.2:56523107-56523126 None:intergenic 45.0%
GAGGATATTGACCCTCCAAA+TGG + chr8.2:56524210-56524229 MS.gene016330:CDS 45.0%
! GGTAAGCTCAGTACTGAAGT+TGG + chr8.2:56523070-56523089 MS.gene016330:CDS 45.0%
!!! ATATTTTTGTATAAAAAAAA+AGG - chr8.2:56523873-56523892 None:intergenic 5.0%
!!! TTTTATACAAAAATATTTAT+TGG + chr8.2:56523877-56523896 MS.gene016330:intron 5.0%
ATGGCACTGCTGCTGCTAAA+TGG + chr8.2:56524163-56524182 MS.gene016330:CDS 50.0%
TGACCCTCCAAATGGCTACA+TGG + chr8.2:56524218-56524237 MS.gene016330:CDS 50.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 56523058 56524305 56523058 ID=MS.gene016330
chr8.2 mRNA 56523058 56524305 56523058 ID=MS.gene016330.t1;Parent=MS.gene016330
chr8.2 exon 56523058 56523244 56523058 ID=MS.gene016330.t1.exon1;Parent=MS.gene016330.t1
chr8.2 CDS 56523058 56523244 56523058 ID=cds.MS.gene016330.t1;Parent=MS.gene016330.t1
chr8.2 exon 56524022 56524305 56524022 ID=MS.gene016330.t1.exon2;Parent=MS.gene016330.t1
chr8.2 CDS 56524022 56524305 56524022 ID=cds.MS.gene016330.t1;Parent=MS.gene016330.t1
Gene Sequence

>MS.gene016330

ATGGTGCTCTCTGGTAAGCTCAGTACTGAAGTTGGAATCAAAACACCCGCCGACAAGTTCTACAATCTGTTCATAACAGAACTTCATGAAGTGCAAAACCTTTGTGAAAGAGTTCATCATACAAAACTTCATGAAGGTGAAGATTGGCATCACACTGATTCGGTTAAACACTGGACTTACGTCATAGGTAATTATGTTTCTAATTCAGTTCACCTGATCGATAACCAAATCATTATCTTATTTAATTTGAAATTTTTTTTATGTTTTATTTTTATTCTTAATGATAACTATACTTCTAATAACAAAAAAAAAAATTTGTGAATTAAAAGAAATATAAGAAAGAAACAAGTACATGGTTACTTATCAATACATGAATTACTTATCAATACATTCTACAAACCAAACATGGTTACCCCTGATTTTTTTTTCTTCCCAAAAACCATTTTCAAGATAGATGCTTCATCATTTCAACCACCTCTTCTACTTTTGACTATGTTGAACGGGAAATATAATCATTCATAAGCTTCCATATTCCCCAGAGAACCTTATGACAAAAAAAATCAACAATCATTTGGGTAACTCATCTCTTAAAGTTTTAAATACAATGTTAACAAATGTGTTCAATTTAATTTGTAAATTTTGTTAATATAGATTATGAGATCTCAAAAATGGTTAAATGAATAAAAAGTAATGAAAAGAAGTATATAAAAATCATGAATTATGTAAAAAAAAAAACAATTATGAATTATTTGAGAGATTAAAATCAGCCATATAAAGAATAACTGTGGTTTACCTTATAAATATTTATTATTCCTTTTTTTTTATACAAAAATATTTATTGGTAAAATAAAACAATATAATAGTTTATTTGTTAAAAAATGGGTGATTGTATTTTTCTGTAGTTGCTATATCCAAAGTTTTCATTTTTATTTGTATTAATTTCCCGTGCCATCATAATTCACAGATGGCAAGGTACATACATGTCACGAGAGAGTTGAAGAAGTTGATGAACTGAATAAAAAAAACACTTATAAGCTCTTTGGTGAAGATATTGATGAGCACTATAAGGTCTTTAAGCTCATCCTTGAAGTCATTGATAAGGGTGATGGCACTGCTGCTGCTAAATGGACAGTTGAATATGAAAAGATCAATGAGGATATTGACCCTCCAAATGGCTACATGGAATACTTTGGCAAAATCACTAGAGATGTTGATGCTCATCTTGCCAAAGCAAAGATAGCTCTATAA

Protein sequence

>MS.gene016330.t1

MVLSGKLSTEVGIKTPADKFYNLFITELHEVQNLCERVHHTKLHEGEDWHHTDSVKHWTYVIDGKVHTCHERVEEVDELNKKNTYKLFGEDIDEHYKVFKLILEVIDKGDGTAAAKWTVEYEKINEDIDPPNGYMEYFGKITRDVDAHLAKAKIAL