AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene028913


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene028913.t1 MTR_2g090295 96.356 247 9 0 1 247 1 247 0.0 504
MS.gene028913.t1 MTR_8g465910 57.255 255 90 7 1 247 1 244 4.25e-98 286
MS.gene028913.t1 MTR_2g013550 41.038 212 95 5 37 232 24 221 2.82e-44 149
MS.gene028913.t1 MTR_2g090330 64.545 110 29 2 37 146 30 129 6.67e-44 146
MS.gene028913.t1 MTR_2g090330 64.545 110 29 2 37 146 27 126 9.20e-44 145
MS.gene028913.t1 MTR_2g090325 60.630 127 35 4 29 153 7 120 2.66e-41 140
MS.gene028913.t1 MTR_4g088870 34.979 243 105 10 14 247 1 199 5.62e-33 119
MS.gene028913.t1 MTR_4g088875 39.706 204 98 6 38 232 29 216 1.39e-32 119
MS.gene028913.t1 MTR_1g021895 52.128 94 33 3 37 128 27 110 1.36e-26 103
MS.gene028913.t1 MTR_5g019300 50.562 89 36 2 40 128 35 115 9.09e-26 101
MS.gene028913.t1 MTR_7g093390 41.964 112 51 4 15 126 149 246 4.03e-23 97.4
MS.gene028913.t1 MTR_1g054260 30.921 152 97 4 3 152 55 200 1.20e-21 89.7
MS.gene028913.t1 MTR_4g029440 38.462 130 65 4 8 129 86 208 1.80e-21 92.8
MS.gene028913.t1 MTR_4g029440 38.462 130 65 4 8 129 92 214 1.94e-21 92.8
MS.gene028913.t1 MTR_1g054465 40.449 89 51 2 40 126 55 143 9.35e-21 87.0
MS.gene028913.t1 MTR_1g054280 38.889 108 58 3 19 126 56 155 9.46e-21 88.6
MS.gene028913.t1 MTR_1g054210 43.011 93 44 3 36 126 116 201 8.18e-19 82.8
MS.gene028913.t1 MTR_2g061230 36.667 90 50 1 40 129 107 189 7.18e-16 74.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene028913.t1 AT4G03510 46.047 215 108 4 35 247 41 249 1.93e-63 199
MS.gene028913.t1 AT4G03510 46.047 215 108 4 35 247 41 249 1.93e-63 199
MS.gene028913.t1 AT4G03510 46.047 215 108 4 35 247 41 249 1.93e-63 199
MS.gene028913.t1 AT4G03510 46.047 215 108 4 35 247 41 249 1.93e-63 199
MS.gene028913.t1 AT4G28270 40.773 233 88 9 24 247 2 193 1.02e-46 154
MS.gene028913.t1 AT4G27470 43.137 204 88 10 40 232 42 228 4.91e-40 138
MS.gene028913.t1 AT2G23780 36.111 216 113 8 40 245 26 226 3.49e-27 104
MS.gene028913.t1 AT2G23780 36.111 216 113 8 40 245 26 226 3.49e-27 104
MS.gene028913.t1 AT2G23780 36.111 216 113 8 40 245 26 226 3.49e-27 104
MS.gene028913.t1 AT1G74990 44.545 110 49 3 30 137 7 106 1.46e-26 100
MS.gene028913.t1 AT1G19310 44.860 107 49 3 24 128 3 101 2.90e-25 99.8
MS.gene028913.t1 AT3G58030 32.759 232 119 10 27 235 122 339 8.02e-23 96.7
MS.gene028913.t1 AT3G58030 32.759 232 119 10 27 235 122 339 8.02e-23 96.7
MS.gene028913.t1 AT3G58030 32.759 232 119 10 27 235 122 339 8.02e-23 96.7
MS.gene028913.t1 AT3G58030 32.759 232 119 10 27 235 122 339 8.02e-23 96.7
MS.gene028913.t1 AT2G42030 33.880 183 91 6 36 213 133 290 1.64e-20 90.1
MS.gene028913.t1 AT2G44410 37.037 108 51 3 25 126 106 202 2.34e-17 80.9
MS.gene028913.t1 AT2G26350 37.895 95 43 3 8 102 299 377 9.50e-11 61.6

Find 66 sgRNAs with CRISPR-Local

Find 72 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTGTAAGATTGTATGAATT+TGG 0.196085 2.3:-10261640 None:intergenic
TTTCTTCCATGGAATCAATT+TGG 0.249281 2.3:-10261063 None:intergenic
AAAGGCAATGATCACCAATT+AGG 0.249482 2.3:+10261361 MS.gene028913:CDS
GTTGAGAATGATTCGGATAA+TGG 0.278191 2.3:-10261489 None:intergenic
CTTTGGAAGGCGGCGTAGTT+TGG 0.290827 2.3:-10261342 None:intergenic
ATGATATATGCAAGGATCTT+TGG 0.299279 2.3:+10261589 MS.gene028913:CDS
CCAAATTCATACAATCTTAC+AGG 0.303928 2.3:+10261640 MS.gene028913:CDS
GCAAGTGGTGAAGCAATTTC+TGG 0.315559 2.3:+10261112 MS.gene028913:CDS
GAGATTTCTGATTTGCATAC+TGG 0.331060 2.3:-10261286 None:intergenic
TATGGAATAGCATTCAAAAT+AGG 0.331156 2.3:-10261762 None:intergenic
CTGTAAGATTGTATGAATTT+GGG 0.342103 2.3:-10261639 None:intergenic
GATACAAGTTATGGTGTCTT+TGG 0.352630 2.3:+10261562 MS.gene028913:CDS
TTGAGAATGATTCGGATAAT+GGG 0.356464 2.3:-10261488 None:intergenic
CTAGACCGCTTGGTCCTTCA+TGG 0.359817 2.3:+10261398 MS.gene028913:CDS
AAGGCAATGATCACCAATTA+GGG 0.391729 2.3:+10261362 MS.gene028913:CDS
GTGGTATGACACTCCCTAAT+TGG 0.404265 2.3:-10261375 None:intergenic
ATGTTTCACAACATAATTCT+CGG 0.420768 2.3:+10261455 MS.gene028913:CDS
CATGAAGGACCAAGCGGTCT+AGG 0.421483 2.3:-10261397 None:intergenic
TTTGCAGCGTCAAGTGATCT+TGG 0.423758 2.3:-10261433 None:intergenic
ATCAAATGCCTTCTGATCCT+TGG 0.432608 2.3:-10261673 None:intergenic
ATTAAGCCATTTGTAAATGC+AGG 0.444845 2.3:-10261218 None:intergenic
GATCCAGTGGTCACTCTTTG+TGG 0.447780 2.3:+10261178 MS.gene028913:CDS
TAATTGGTGATCATTGCCTT+TGG 0.448612 2.3:-10261359 None:intergenic
GCTGGCCCTGCATTTACAAA+TGG 0.463384 2.3:+10261212 MS.gene028913:CDS
CTCCTCAAAATACTGATTGA+AGG 0.463468 2.3:-10261032 None:intergenic
TATGAACCAAATTGATTCCA+TGG 0.475517 2.3:+10261057 MS.gene028913:CDS
TTTGTGGTCATCTCTACTGC+TGG 0.480977 2.3:+10261194 MS.gene028913:CDS
AATCCATTGGATACAAGTTA+TGG 0.483929 2.3:+10261553 MS.gene028913:CDS
ATAACTTGTATCCAATGGAT+TGG 0.489925 2.3:-10261551 None:intergenic
ATGTATATATGTTTGTCACT+TGG 0.494265 2.3:-10261615 None:intergenic
TAACTTGTATCCAATGGATT+GGG 0.500116 2.3:-10261550 None:intergenic
CTTTGACTGCAACATATGCT+TGG 0.503274 2.3:+10261144 MS.gene028913:CDS
GTTTGGCCGCGGCCGTAGAG+TGG 0.505416 2.3:-10261325 None:intergenic
GAAGCAATTTCTGGTTCTAG+TGG 0.514216 2.3:+10261121 MS.gene028913:CDS
TGGTGATCATTGCCTTTGGA+AGG 0.521075 2.3:-10261355 None:intergenic
TGGTTCACTGCCCAATCCAT+TGG 0.524258 2.3:+10261540 MS.gene028913:CDS
TCATCCCTTGTTCCACTCTA+CGG 0.525770 2.3:+10261313 MS.gene028913:CDS
AAGGCGGCGTAGTTTGGCCG+CGG 0.530973 2.3:-10261336 None:intergenic
GACACAAAACTGTGCAGCAA+AGG 0.541056 2.3:-10261735 None:intergenic
CGCGGCCGTAGAGTGGAACA+AGG 0.543163 2.3:-10261318 None:intergenic
GTGTATCGTTGAGAATGATT+CGG 0.543480 2.3:-10261496 None:intergenic
CAAATTCATACAATCTTACA+GGG 0.556632 2.3:+10261641 MS.gene028913:CDS
GTCATACCACCTAGACCGCT+TGG 0.564556 2.3:+10261388 MS.gene028913:CDS
CAAACTACGCCGCCTTCCAA+AGG 0.572732 2.3:+10261343 MS.gene028913:CDS
GGTAAGTTCGTCATCCATGA+AGG 0.573904 2.3:-10261412 None:intergenic
ACACCATAACTTGTATCCAA+TGG 0.574386 2.3:-10261556 None:intergenic
ACAAAACTGTGCAGCAAAGG+AGG 0.577384 2.3:-10261732 None:intergenic
TGATCATTGCCTTTGGAAGG+CGG 0.577497 2.3:-10261352 None:intergenic
TCAGTAATCCAAGGATCAGA+AGG 0.591994 2.3:+10261665 MS.gene028913:CDS
TGACCACAAAGAGTGACCAC+TGG 0.593140 2.3:-10261181 None:intergenic
TTAAGCCATTTGTAAATGCA+GGG 0.593204 2.3:-10261217 None:intergenic
TCGCCAATGTTTAACACAGG+TGG 0.595550 2.3:+10261520 MS.gene028913:CDS
GATTTGCATACTGGACATTG+TGG 0.605821 2.3:-10261277 None:intergenic
GAACCACCTGTGTTAAACAT+TGG 0.613627 2.3:-10261523 None:intergenic
ATGCGAGCTGATAAGTCGCT+CGG 0.619945 2.3:+10261694 MS.gene028913:CDS
TTACAGGGATCAGTAATCCA+AGG 0.633705 2.3:+10261656 MS.gene028913:CDS
CGAAAATCAAGAGAAGCAGA+AGG 0.635468 2.3:+10261249 MS.gene028913:CDS
TGAGAATGATTCGGATAATG+GGG 0.646474 2.3:-10261487 None:intergenic
TTGGTGAGATGATATATGCA+AGG 0.649382 2.3:+10261581 MS.gene028913:CDS
GAAGGACCAAGCGGTCTAGG+TGG 0.660331 2.3:-10261394 None:intergenic
ACTTCGCCAATGTTTAACAC+AGG 0.666429 2.3:+10261517 MS.gene028913:CDS
GGAGTGTGTGCAAGATCCAG+TGG 0.671005 2.3:+10261165 MS.gene028913:CDS
CTTGTTCCACTCTACGGCCG+CGG 0.675004 2.3:+10261319 MS.gene028913:CDS
GTCATCCATGAAGGACCAAG+CGG 0.707584 2.3:-10261403 None:intergenic
GAAGTGTGGAAATGTGCAAG+TGG 0.714630 2.3:+10261097 MS.gene028913:CDS
GCGGCCGTAGAGTGGAACAA+GGG 0.719279 2.3:-10261317 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATGTATATATGTTTGTCACT+TGG - chr2.3:10261618-10261637 None:intergenic 25.0%
! ATGTTTCACAACATAATTCT+CGG + chr2.3:10261455-10261474 MS.gene028913:CDS 25.0%
! CAAATTCATACAATCTTACA+GGG + chr2.3:10261641-10261660 MS.gene028913:CDS 25.0%
! CTGTAAGATTGTATGAATTT+GGG - chr2.3:10261642-10261661 None:intergenic 25.0%
AAAAATCATCTCAAGAAGTG+TGG + chr2.3:10261083-10261102 MS.gene028913:CDS 30.0%
AATCCATTGGATACAAGTTA+TGG + chr2.3:10261553-10261572 MS.gene028913:CDS 30.0%
ATGATATATGCAAGGATCTT+TGG + chr2.3:10261589-10261608 MS.gene028913:CDS 30.0%
ATTAAGCCATTTGTAAATGC+AGG - chr2.3:10261221-10261240 None:intergenic 30.0%
CCAAATTCATACAATCTTAC+AGG + chr2.3:10261640-10261659 MS.gene028913:CDS 30.0%
CCTGTAAGATTGTATGAATT+TGG - chr2.3:10261643-10261662 None:intergenic 30.0%
TTAAGCCATTTGTAAATGCA+GGG - chr2.3:10261220-10261239 None:intergenic 30.0%
TTTCTTCCATGGAATCAATT+TGG - chr2.3:10261066-10261085 None:intergenic 30.0%
! ATAACTTGTATCCAATGGAT+TGG - chr2.3:10261554-10261573 None:intergenic 30.0%
! TAACTTGTATCCAATGGATT+GGG - chr2.3:10261553-10261572 None:intergenic 30.0%
! TATGAACCAAATTGATTCCA+TGG + chr2.3:10261057-10261076 MS.gene028913:CDS 30.0%
! TTGAGAATGATTCGGATAAT+GGG - chr2.3:10261491-10261510 None:intergenic 30.0%
! TTGAGATGATTTTTCTTCCA+TGG - chr2.3:10261077-10261096 None:intergenic 30.0%
!! TTCAATCAGTATTTTGAGGA+GGG + chr2.3:10261034-10261053 MS.gene028913:CDS 30.0%
AAAGGCAATGATCACCAATT+AGG + chr2.3:10261361-10261380 MS.gene028913:CDS 35.0%
AAGGCAATGATCACCAATTA+GGG + chr2.3:10261362-10261381 MS.gene028913:CDS 35.0%
GATACAAGTTATGGTGTCTT+TGG + chr2.3:10261562-10261581 MS.gene028913:CDS 35.0%
GTGTATCGTTGAGAATGATT+CGG - chr2.3:10261499-10261518 None:intergenic 35.0%
TTGGTGAGATGATATATGCA+AGG + chr2.3:10261581-10261600 MS.gene028913:CDS 35.0%
! ACACCATAACTTGTATCCAA+TGG - chr2.3:10261559-10261578 None:intergenic 35.0%
! CTCCTCAAAATACTGATTGA+AGG - chr2.3:10261035-10261054 None:intergenic 35.0%
! CTTCTGCTTCTCTTGATTTT+CGG - chr2.3:10261251-10261270 None:intergenic 35.0%
! GAGATTTCTGATTTGCATAC+TGG - chr2.3:10261289-10261308 None:intergenic 35.0%
! GTTGAGAATGATTCGGATAA+TGG - chr2.3:10261492-10261511 None:intergenic 35.0%
! TAATTGGTGATCATTGCCTT+TGG - chr2.3:10261362-10261381 None:intergenic 35.0%
! TGAGAATGATTCGGATAATG+GGG - chr2.3:10261490-10261509 None:intergenic 35.0%
!! CTTCAATCAGTATTTTGAGG+AGG + chr2.3:10261033-10261052 MS.gene028913:CDS 35.0%
ACTTCGCCAATGTTTAACAC+AGG + chr2.3:10261517-10261536 MS.gene028913:CDS 40.0%
ATCAAATGCCTTCTGATCCT+TGG - chr2.3:10261676-10261695 None:intergenic 40.0%
CGAAAATCAAGAGAAGCAGA+AGG + chr2.3:10261249-10261268 MS.gene028913:CDS 40.0%
CTTTGACTGCAACATATGCT+TGG + chr2.3:10261144-10261163 MS.gene028913:CDS 40.0%
GAACCACCTGTGTTAAACAT+TGG - chr2.3:10261526-10261545 None:intergenic 40.0%
GATTTGCATACTGGACATTG+TGG - chr2.3:10261280-10261299 None:intergenic 40.0%
TCAGTAATCCAAGGATCAGA+AGG + chr2.3:10261665-10261684 MS.gene028913:CDS 40.0%
TTACAGGGATCAGTAATCCA+AGG + chr2.3:10261656-10261675 MS.gene028913:CDS 40.0%
! GGCCTTCAATCAGTATTTTG+AGG + chr2.3:10261030-10261049 MS.gene028913:CDS 40.0%
!! GAAGCAATTTCTGGTTCTAG+TGG + chr2.3:10261121-10261140 MS.gene028913:CDS 40.0%
ACAAAACTGTGCAGCAAAGG+AGG - chr2.3:10261735-10261754 None:intergenic 45.0%
GAAGTGTGGAAATGTGCAAG+TGG + chr2.3:10261097-10261116 MS.gene028913:CDS 45.0%
GACACAAAACTGTGCAGCAA+AGG - chr2.3:10261738-10261757 None:intergenic 45.0%
GCAAGTGGTGAAGCAATTTC+TGG + chr2.3:10261112-10261131 MS.gene028913:CDS 45.0%
GGTAAGTTCGTCATCCATGA+AGG - chr2.3:10261415-10261434 None:intergenic 45.0%
GTGGTATGACACTCCCTAAT+TGG - chr2.3:10261378-10261397 None:intergenic 45.0%
TCATCCCTTGTTCCACTCTA+CGG + chr2.3:10261313-10261332 MS.gene028913:CDS 45.0%
TCGCCAATGTTTAACACAGG+TGG + chr2.3:10261520-10261539 MS.gene028913:CDS 45.0%
TGGTGATCATTGCCTTTGGA+AGG - chr2.3:10261358-10261377 None:intergenic 45.0%
TTTGCAGCGTCAAGTGATCT+TGG - chr2.3:10261436-10261455 None:intergenic 45.0%
TTTGTGGTCATCTCTACTGC+TGG + chr2.3:10261194-10261213 MS.gene028913:CDS 45.0%
! GCTTCTCTTGATTTTCGGCA+TGG - chr2.3:10261246-10261265 None:intergenic 45.0%
! TGATCATTGCCTTTGGAAGG+CGG - chr2.3:10261355-10261374 None:intergenic 45.0%
ATGCGAGCTGATAAGTCGCT+CGG + chr2.3:10261694-10261713 MS.gene028913:CDS 50.0%
GATCCAGTGGTCACTCTTTG+TGG + chr2.3:10261178-10261197 MS.gene028913:CDS 50.0%
GCTGGCCCTGCATTTACAAA+TGG + chr2.3:10261212-10261231 MS.gene028913:CDS 50.0%
GTCATCCATGAAGGACCAAG+CGG - chr2.3:10261406-10261425 None:intergenic 50.0%
TGACCACAAAGAGTGACCAC+TGG - chr2.3:10261184-10261203 None:intergenic 50.0%
TGGTTCACTGCCCAATCCAT+TGG + chr2.3:10261540-10261559 MS.gene028913:CDS 50.0%
CAAACTACGCCGCCTTCCAA+AGG + chr2.3:10261343-10261362 MS.gene028913:CDS 55.0%
CATGAAGGACCAAGCGGTCT+AGG - chr2.3:10261400-10261419 None:intergenic 55.0%
CTAGACCGCTTGGTCCTTCA+TGG + chr2.3:10261398-10261417 MS.gene028913:CDS 55.0%
GGAGTGTGTGCAAGATCCAG+TGG + chr2.3:10261165-10261184 MS.gene028913:CDS 55.0%
GTCATACCACCTAGACCGCT+TGG + chr2.3:10261388-10261407 MS.gene028913:CDS 55.0%
! CTTTGGAAGGCGGCGTAGTT+TGG - chr2.3:10261345-10261364 None:intergenic 55.0%
CTTGTTCCACTCTACGGCCG+CGG + chr2.3:10261319-10261338 MS.gene028913:CDS 60.0%
GAAGGACCAAGCGGTCTAGG+TGG - chr2.3:10261397-10261416 None:intergenic 60.0%
GCGGCCGTAGAGTGGAACAA+GGG - chr2.3:10261320-10261339 None:intergenic 60.0%
AAGGCGGCGTAGTTTGGCCG+CGG - chr2.3:10261339-10261358 None:intergenic 65.0%
CGCGGCCGTAGAGTGGAACA+AGG - chr2.3:10261321-10261340 None:intergenic 65.0%
GTTTGGCCGCGGCCGTAGAG+TGG - chr2.3:10261328-10261347 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr2.3 gene 10261028 10261771 10261028 ID=MS.gene028913
chr2.3 mRNA 10261028 10261771 10261028 ID=MS.gene028913.t1;Parent=MS.gene028913
chr2.3 exon 10261028 10261771 10261028 ID=MS.gene028913.t1.exon1;Parent=MS.gene028913.t1
chr2.3 CDS 10261028 10261771 10261028 ID=cds.MS.gene028913.t1;Parent=MS.gene028913.t1
Gene Sequence

>MS.gene028913

ATGGCCTTCAATCAGTATTTTGAGGAGGGTATGAACCAAATTGATTCCATGGAAGAAAAATCATCTCAAGAAGTGTGGAAATGTGCAAGTGGTGAAGCAATTTCTGGTTCTAGTGGCTTTGACTGCAACATATGCTTGGAGTGTGTGCAAGATCCAGTGGTCACTCTTTGTGGTCATCTCTACTGCTGGCCCTGCATTTACAAATGGCTTAATTTCCATGCCGAAAATCAAGAGAAGCAGAAGGAGCAGCCACAATGTCCAGTATGCAAATCAGAAATCTCAAAATCATCCCTTGTTCCACTCTACGGCCGCGGCCAAACTACGCCGCCTTCCAAAGGCAATGATCACCAATTAGGGAGTGTCATACCACCTAGACCGCTTGGTCCTTCATGGATGACGAACTTACCAAGATCACTTGACGCTGCAAATGTTTCACAACATAATTCTCGGTCTTATCATCCCCATTATCCGAATCATTCTCAACGATACACTTCGCCAATGTTTAACACAGGTGGTTCACTGCCCAATCCATTGGATACAAGTTATGGTGTCTTTGGTGAGATGATATATGCAAGGATCTTTGGAAACCAAGTGACAAACATATATACATACCCAAATTCATACAATCTTACAGGGATCAGTAATCCAAGGATCAGAAGGCATTTGATGCGAGCTGATAAGTCGCTCGGTAGAATCTGTTTCTTCCTCCTTTGCTGCACAGTTTTGTGTCTTCTCCTATTTTGA

Protein sequence

>MS.gene028913.t1

MAFNQYFEEGMNQIDSMEEKSSQEVWKCASGEAISGSSGFDCNICLECVQDPVVTLCGHLYCWPCIYKWLNFHAENQEKQKEQPQCPVCKSEISKSSLVPLYGRGQTTPPSKGNDHQLGSVIPPRPLGPSWMTNLPRSLDAANVSQHNSRSYHPHYPNHSQRYTSPMFNTGGSLPNPLDTSYGVFGEMIYARIFGNQVTNIYTYPNSYNLTGISNPRIRRHLMRADKSLGRICFFLLCCTVLCLLLF