AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene038936

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene038936.t1 MTR_2g435490 98.907 183 2 0 1 183 1 183 1.00e-137 382
MS.gene038936.t1 MTR_4g050762 58.599 157 60 2 20 174 16 169 2.65e-66 201
MS.gene038936.t1 MTR_2g012370 58.599 157 60 2 20 174 16 169 2.65e-66 201
MS.gene038936.t1 MTR_2g010600 56.962 158 65 2 9 164 6 162 3.25e-66 200
MS.gene038936.t1 MTR_2g010590 53.750 160 73 1 5 164 1 159 7.59e-63 191
MS.gene038936.t1 MTR_2g010630 55.844 154 60 4 17 164 14 165 4.86e-57 177
MS.gene038936.t1 MTR_2g010580 51.572 159 73 3 8 164 8 164 5.08e-57 177
MS.gene038936.t1 MTR_2g010650 53.529 170 68 7 1 164 1 165 8.12e-56 174
MS.gene038936.t1 MTR_2g010610 50.345 145 50 2 20 164 16 138 4.64e-50 158
MS.gene038936.t1 MTR_4g092540 45.912 159 82 4 7 164 4 159 1.83e-48 155
MS.gene038936.t1 MTR_4g128750 51.128 133 64 1 33 164 41 173 9.88e-47 151
MS.gene038936.t1 MTR_2g010700 46.341 164 77 5 10 164 7 168 2.44e-46 150
MS.gene038936.t1 MTR_2g010640 45.963 161 79 5 9 164 6 163 7.02e-44 143
MS.gene038936.t1 MTR_2g010690 44.444 162 81 5 9 164 6 164 5.98e-41 136
MS.gene038936.t1 MTR_2g010670 45.062 162 80 5 9 164 6 164 1.16e-39 132
MS.gene038936.t1 MTR_4g128770 44.928 138 70 3 32 164 70 206 6.84e-39 132
MS.gene038936.t1 MTR_8g078770 37.143 140 84 3 29 164 33 172 1.59e-32 115
MS.gene038936.t1 MTR_1g067290 38.971 136 80 3 32 164 73 208 1.85e-31 113
MS.gene038936.t1 MTR_5g018770 37.857 140 81 4 31 164 46 185 1.12e-30 110
MS.gene038936.t1 MTR_4g092515 51.136 88 42 1 9 95 9 96 3.90e-23 89.7
MS.gene038936.t1 MTR_5g018755 35.165 91 54 4 79 164 13 103 2.18e-12 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.gene038936.t1 AT2G14610 58.228 158 63 2 7 164 7 161 2.50e-69 208
MS.gene038936.t1 AT4G33720 57.325 157 65 2 8 164 9 163 7.49e-68 204
MS.gene038936.t1 AT2G14580 58.228 158 63 2 7 164 7 161 2.79e-67 202
MS.gene038936.t1 AT3G19690 51.829 164 73 3 3 164 2 161 3.84e-58 179
MS.gene038936.t1 AT4G33710 56.738 141 58 2 26 164 27 166 7.30e-54 169
MS.gene038936.t1 AT2G19990 54.074 135 62 0 30 164 42 176 5.83e-53 167
MS.gene038936.t1 AT5G26130 51.266 158 73 3 9 164 11 166 8.78e-53 166
MS.gene038936.t1 AT4G33730 51.923 156 72 3 10 164 19 172 1.30e-52 166
MS.gene038936.t1 AT4G25790 50.370 135 66 1 31 164 76 210 5.99e-50 160
MS.gene038936.t1 AT1G50060 50.649 154 74 2 12 164 9 161 3.33e-49 157
MS.gene038936.t1 AT5G57625 51.128 133 64 1 33 164 75 207 4.52e-48 155
MS.gene038936.t1 AT4G30320 41.212 165 92 3 1 164 1 161 3.62e-45 147
MS.gene038936.t1 AT3G09590 41.401 157 90 1 10 164 30 186 3.01e-44 145
MS.gene038936.t1 AT1G50050 48.387 155 77 3 12 164 9 162 1.77e-42 140
MS.gene038936.t1 AT1G01310 42.484 153 73 3 32 183 87 225 3.73e-41 139
MS.gene038936.t1 AT4G31470 45.926 135 71 2 31 164 52 185 2.58e-39 132
MS.gene038936.t1 AT1G50050 48.276 145 72 3 12 154 9 152 3.99e-38 130
MS.gene038936.t1 AT4G25780 44.203 138 71 4 32 164 54 190 4.91e-38 129
MS.gene038936.t1 AT5G02730 36.970 165 102 1 11 173 38 202 4.06e-37 127
MS.gene038936.t1 AT4G07820 43.165 139 76 3 26 164 25 160 1.03e-35 122
MS.gene038936.t1 AT5G66590 40.602 133 74 3 37 164 53 185 2.56e-31 112
MS.gene038936.t1 AT2G19970 40.741 135 69 5 29 154 34 166 1.11e-26 100
MS.gene038936.t1 AT2G19980 35.542 166 84 8 12 164 10 165 1.20e-22 89.4

Find 46 sgRNAs with CRISPR-Local

Find 52 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGTAGTCTTGTGGTGAGTTT+TGG 0.282878 2.4:+55625332 None:intergenic
GACATTATACTCAGGTTGTT+TGG 0.338106 2.4:-55625051 MS.gene038936:CDS
GAAGGAGATGTGAGATCATT+GGG 0.354867 2.4:+55625401 None:intergenic
ATTAAAAGCAAACTGCAAAA+TGG 0.363614 2.4:-55625215 MS.gene038936:CDS
GATCCACCTGGTAATTATAT+TGG 0.367528 2.4:-55624953 MS.gene038936:CDS
TTGTTTGGCGCGATTCGGTT+CGG 0.384031 2.4:-55625036 MS.gene038936:CDS
TTGGTGTTGGCCCAATATCT+TGG 0.387017 2.4:-55625279 MS.gene038936:CDS
TGTTTGGCGCGATTCGGTTC+GGG 0.388041 2.4:-55625035 MS.gene038936:CDS
TCAGGTTGTTTGGCGCGATT+CGG 0.394956 2.4:-55625041 MS.gene038936:CDS
ATCATAGTTACAACTAATAA+TGG 0.408982 2.4:+55624973 None:intergenic
GGAAGGAGATGTGAGATCAT+TGG 0.420420 2.4:+55625400 None:intergenic
AAGCTCAATGGCACTTCAAA+AGG 0.430809 2.4:+55624908 None:intergenic
TGGTGTTGGCCCAATATCTT+GGG 0.465713 2.4:-55625278 MS.gene038936:CDS
GTACACTCCAAGGGTCCATA+TGG 0.472690 2.4:-55625193 MS.gene038936:CDS
AACAGTAATTCATGTGCTGC+TGG 0.480672 2.4:-55625085 MS.gene038936:CDS
AACAAAGCACGCTCTGACGT+TGG 0.488151 2.4:-55625298 MS.gene038936:CDS
TCAAAAGGACTAATATCAAA+AGG 0.488505 2.4:+55624923 None:intergenic
CTCACATCTCCTTCCACTCA+TGG 0.495622 2.4:-55625392 MS.gene038936:CDS
CTACCATGGTTGAAGCTCAA+TGG 0.504277 2.4:+55624896 None:intergenic
CTGCAAAATGGTACACTCCA+AGG 0.542543 2.4:-55625203 MS.gene038936:CDS
GCACGCTCTGACGTTGGTGT+TGG 0.542698 2.4:-55625292 MS.gene038936:CDS
CTTTGACCAATATAATTACC+AGG 0.549756 2.4:+55624947 None:intergenic
ACAAGATAGCCATGAGTGGA+AGG 0.552738 2.4:+55625383 None:intergenic
TGGCGCGATTCGGTTCGGGT+TGG 0.564234 2.4:-55625031 MS.gene038936:CDS
TGGAGCAGTGGTGACATGAC+AGG 0.569134 2.4:-55625157 MS.gene038936:CDS
GGTTCGGGTTGGATGTGCTA+AGG 0.572627 2.4:-55625020 MS.gene038936:CDS
GCTGCTGTTACCATGTGGAT+TGG 0.573532 2.4:-55625130 MS.gene038936:CDS
CTGGTAATTATATTGGTCAA+AGG 0.577693 2.4:-55624946 MS.gene038936:CDS
GTTTACATAGGTTTGTGCAT+AGG 0.587350 2.4:+55625240 None:intergenic
GAAAATTTAGCATGGAGCAG+TGG 0.597306 2.4:-55625169 MS.gene038936:CDS
GCTAAGGTAAAATGTAATGA+TGG 0.604315 2.4:-55625004 MS.gene038936:CDS
TGCAAAATGGTACACTCCAA+GGG 0.616230 2.4:-55625202 MS.gene038936:CDS
CATATGGAGAAAATTTAGCA+TGG 0.617244 2.4:-55625177 MS.gene038936:CDS
ACTTGTCATCAAAACTACCA+TGG 0.632716 2.4:+55624882 None:intergenic
GTGCCATTGAGCTTCAACCA+TGG 0.637543 2.4:-55624899 MS.gene038936:CDS
GTGCTTTGTTGTGAATCTTG+AGG 0.640090 2.4:+55625311 None:intergenic
ATATGAGATTTGTGTTAGTG+TGG 0.642003 2.4:+55625357 None:intergenic
TGAATCTTGAGGTAGTCTTG+TGG 0.649652 2.4:+55625322 None:intergenic
TGTGCTGCTGGTTATCAGTG+TGG 0.652561 2.4:-55625073 MS.gene038936:CDS
TCAGTGTGGACATTATACTC+AGG 0.656601 2.4:-55625059 MS.gene038936:CDS
TTTCTTCTCTCCAATCCACA+TGG 0.658038 2.4:+55625120 None:intergenic
AGTTGTAACTATGATCCACC+TGG 0.667304 2.4:-55624965 MS.gene038936:CDS
GCTAACAAGATAGCCATGAG+TGG 0.671580 2.4:+55625379 None:intergenic
GAACAGCTGCTGTTACCATG+TGG 0.688628 2.4:-55625135 MS.gene038936:CDS
TGACCAATATAATTACCAGG+TGG 0.723440 2.4:+55624950 None:intergenic
AAGGAGATGTGAGATCATTG+GGG 0.724704 2.4:+55625402 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATCATAGTTACAACTAATAA+TGG + chr2.4:55625319-55625338 None:intergenic 20.0%
!!! TGCTTTTAATTTGTTTACAT+AGG + chr2.4:55625064-55625083 None:intergenic 20.0%
! ATTAAAAGCAAACTGCAAAA+TGG - chr2.4:55625074-55625093 MS.gene038936:CDS 25.0%
! TCAAAAGGACTAATATCAAA+AGG + chr2.4:55625369-55625388 None:intergenic 25.0%
ATATGAGATTTGTGTTAGTG+TGG + chr2.4:55624935-55624954 None:intergenic 30.0%
CATATGGAGAAAATTTAGCA+TGG - chr2.4:55625112-55625131 MS.gene038936:CDS 30.0%
CTGGTAATTATATTGGTCAA+AGG - chr2.4:55625343-55625362 MS.gene038936:CDS 30.0%
CTTTGACCAATATAATTACC+AGG + chr2.4:55625345-55625364 None:intergenic 30.0%
GCTAAGGTAAAATGTAATGA+TGG - chr2.4:55625285-55625304 MS.gene038936:CDS 30.0%
! CATGCTAAATTTTCTCCATA+TGG + chr2.4:55625114-55625133 None:intergenic 30.0%
ACTTGTCATCAAAACTACCA+TGG + chr2.4:55625410-55625429 None:intergenic 35.0%
GATCCACCTGGTAATTATAT+TGG - chr2.4:55625336-55625355 MS.gene038936:CDS 35.0%
GTTTACATAGGTTTGTGCAT+AGG + chr2.4:55625052-55625071 None:intergenic 35.0%
TGACCAATATAATTACCAGG+TGG + chr2.4:55625342-55625361 None:intergenic 35.0%
! ACTTTTGCATCCCAAGATAT+TGG + chr2.4:55625024-55625043 None:intergenic 35.0%
! CTTTTGCATCCCAAGATATT+GGG + chr2.4:55625023-55625042 None:intergenic 35.0%
! GACATTATACTCAGGTTGTT+TGG - chr2.4:55625238-55625257 MS.gene038936:CDS 35.0%
AACAGTAATTCATGTGCTGC+TGG - chr2.4:55625204-55625223 MS.gene038936:CDS 40.0%
AAGCTCAATGGCACTTCAAA+AGG + chr2.4:55625384-55625403 None:intergenic 40.0%
AAGGAGATGTGAGATCATTG+GGG + chr2.4:55624890-55624909 None:intergenic 40.0%
AGTTGTAACTATGATCCACC+TGG - chr2.4:55625324-55625343 MS.gene038936:CDS 40.0%
GAAAATTTAGCATGGAGCAG+TGG - chr2.4:55625120-55625139 MS.gene038936:CDS 40.0%
GAAGGAGATGTGAGATCATT+GGG + chr2.4:55624891-55624910 None:intergenic 40.0%
TCAGTGTGGACATTATACTC+AGG - chr2.4:55625230-55625249 MS.gene038936:CDS 40.0%
TGCAAAATGGTACACTCCAA+GGG - chr2.4:55625087-55625106 MS.gene038936:CDS 40.0%
TTTCTTCTCTCCAATCCACA+TGG + chr2.4:55625172-55625191 None:intergenic 40.0%
! ATTTTCTCCATATGGACCCT+TGG + chr2.4:55625106-55625125 None:intergenic 40.0%
! GTGCTTTGTTGTGAATCTTG+AGG + chr2.4:55624981-55625000 None:intergenic 40.0%
! TGAATCTTGAGGTAGTCTTG+TGG + chr2.4:55624970-55624989 None:intergenic 40.0%
!!! GTAGTCTTGTGGTGAGTTTT+GGG + chr2.4:55624959-55624978 None:intergenic 40.0%
ACAAGATAGCCATGAGTGGA+AGG + chr2.4:55624909-55624928 None:intergenic 45.0%
CTACCATGGTTGAAGCTCAA+TGG + chr2.4:55625396-55625415 None:intergenic 45.0%
CTGCAAAATGGTACACTCCA+AGG - chr2.4:55625086-55625105 MS.gene038936:CDS 45.0%
GCTAACAAGATAGCCATGAG+TGG + chr2.4:55624913-55624932 None:intergenic 45.0%
GGAAGGAGATGTGAGATCAT+TGG + chr2.4:55624892-55624911 None:intergenic 45.0%
!! TGGTGTTGGCCCAATATCTT+GGG - chr2.4:55625011-55625030 MS.gene038936:CDS 45.0%
!! TTGGTGTTGGCCCAATATCT+TGG - chr2.4:55625010-55625029 MS.gene038936:CDS 45.0%
!!! GGTAGTCTTGTGGTGAGTTT+TGG + chr2.4:55624960-55624979 None:intergenic 45.0%
AACAAAGCACGCTCTGACGT+TGG - chr2.4:55624991-55625010 MS.gene038936:CDS 50.0%
CTCACATCTCCTTCCACTCA+TGG - chr2.4:55624897-55624916 MS.gene038936:CDS 50.0%
GAACAGCTGCTGTTACCATG+TGG - chr2.4:55625154-55625173 MS.gene038936:CDS 50.0%
GCTGCTGTTACCATGTGGAT+TGG - chr2.4:55625159-55625178 MS.gene038936:CDS 50.0%
GTACACTCCAAGGGTCCATA+TGG - chr2.4:55625096-55625115 MS.gene038936:CDS 50.0%
! GTGCCATTGAGCTTCAACCA+TGG - chr2.4:55625390-55625409 MS.gene038936:CDS 50.0%
! TCAGGTTGTTTGGCGCGATT+CGG - chr2.4:55625248-55625267 MS.gene038936:CDS 50.0%
! TGTGCTGCTGGTTATCAGTG+TGG - chr2.4:55625216-55625235 MS.gene038936:CDS 50.0%
!! TTGTTTGGCGCGATTCGGTT+CGG - chr2.4:55625253-55625272 MS.gene038936:CDS 50.0%
TGGAGCAGTGGTGACATGAC+AGG - chr2.4:55625132-55625151 MS.gene038936:CDS 55.0%
!! GGTTCGGGTTGGATGTGCTA+AGG - chr2.4:55625269-55625288 MS.gene038936:CDS 55.0%
!! TGTTTGGCGCGATTCGGTTC+GGG - chr2.4:55625254-55625273 MS.gene038936:CDS 55.0%
GCACGCTCTGACGTTGGTGT+TGG - chr2.4:55624997-55625016 MS.gene038936:CDS 60.0%
!! TGGCGCGATTCGGTTCGGGT+TGG - chr2.4:55625258-55625277 MS.gene038936:CDS 65.0%


Chromosome Type Strat End Strand Name
chr2.4 gene 55624880 55625431 55624880 ID=MS.gene038936
chr2.4 mRNA 55624880 55625431 55624880 ID=MS.gene038936.t1;Parent=MS.gene038936
chr2.4 exon 55624880 55625431 55624880 ID=MS.gene038936.t1.exon1;Parent=MS.gene038936.t1
chr2.4 CDS 55624880 55625431 55624880 ID=cds.MS.gene038936.t1;Parent=MS.gene038936.t1
Gene Sequence

>MS.gene038936

ATGGGATCCCCAATGATCTCACATCTCCTTCCACTCATGGCTATCTTGTTAGCCACACTAACACAAATCTCATATGCCCAAAACTCACCACAAGACTACCTCAAGATTCACAACAAAGCACGCTCTGACGTTGGTGTTGGCCCAATATCTTGGGATGCAAAAGTTGCTTCCTATGCACAAACCTATGTAAACAAATTAAAAGCAAACTGCAAAATGGTACACTCCAAGGGTCCATATGGAGAAAATTTAGCATGGAGCAGTGGTGACATGACAGGAACAGCTGCTGTTACCATGTGGATTGGAGAGAAGAAATACTATAATTACAACAGTAATTCATGTGCTGCTGGTTATCAGTGTGGACATTATACTCAGGTTGTTTGGCGCGATTCGGTTCGGGTTGGATGTGCTAAGGTAAAATGTAATGATGGTCGTAGCACCATTATTAGTTGTAACTATGATCCACCTGGTAATTATATTGGTCAAAGGCCTTTTGATATTAGTCCTTTTGAAGTGCCATTGAGCTTCAACCATGGTAGTTTTGATGACAAGTAA
Protein sequence

>MS.gene038936.t1

MGSPMISHLLPLMAILLATLTQISYAQNSPQDYLKIHNKARSDVGVGPISWDAKVASYAQTYVNKLKANCKMVHSKGPYGENLAWSSGDMTGTAAVTMWIGEKKYYNYNSNSCAAGYQCGHYTQVVWRDSVRVGCAKVKCNDGRSTIISCNYDPPGNYIGQRPFDISPFEVPLSFNHGSFDDK