AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene41094

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene41094.t1 MTR_0907s0020 93.277 119 8 0 1 119 64 182 3.76e-67 201
MS.gene41094.t1 MTR_7g105790 79.221 77 15 1 41 117 112 187 8.53e-40 132
MS.gene41094.t1 MTR_4g052040 63.768 69 25 0 41 109 101 169 2.27e-26 97.1
MS.gene41094.t1 MTR_5g079710 48.113 106 45 2 2 107 64 159 4.75e-25 95.5
MS.gene41094.t1 MTR_4g052060 61.538 65 25 0 41 105 95 159 1.95e-22 87.0
MS.gene41094.t1 MTR_8g103520 54.167 72 32 1 34 105 220 290 3.49e-20 83.6
MS.gene41094.t1 MTR_5g075210 53.226 62 29 0 39 100 280 341 3.70e-17 75.9
MS.gene41094.t1 MTR_4g028930 44.928 69 38 0 32 100 307 375 3.06e-16 73.6
MS.gene41094.t1 MTR_7g072875 43.478 69 39 0 32 100 212 280 5.25e-15 69.3
MS.gene41094.t1 MTR_7g072630 43.478 69 39 0 32 100 274 342 8.46e-15 69.3
MS.gene41094.t1 MTR_3g111780 56.061 66 29 0 39 104 198 263 1.00e-14 68.6
MS.gene41094.t1 MTR_8g087530 48.438 64 33 0 37 100 256 319 2.28e-14 68.2
MS.gene41094.t1 MTR_2g018030 38.961 77 43 1 42 114 280 356 3.50e-13 64.7
MS.gene41094.t1 MTR_4g132740 42.424 66 38 0 41 106 83 148 1.48e-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.gene41094.t1 AT3G52525 80.000 65 13 0 36 100 63 127 1.29e-34 117
MS.gene41094.t1 AT2G36026 82.540 63 11 0 44 106 91 153 6.98e-34 116
MS.gene41094.t1 AT5G19650 52.239 67 32 0 39 105 154 220 2.85e-21 85.1
MS.gene41094.t1 AT2G18500 54.412 68 31 0 36 103 223 290 2.92e-21 86.7
MS.gene41094.t1 AT1G06920 39.796 98 49 2 16 113 228 315 2.37e-16 73.6
MS.gene41094.t1 AT2G30400 51.613 62 30 0 39 100 252 313 8.59e-16 72.0
MS.gene41094.t1 AT5G01840 53.448 58 27 0 43 100 202 259 8.18e-15 68.9
MS.gene41094.t1 AT4G18830 47.059 68 36 0 34 101 277 344 1.03e-14 69.3
MS.gene41094.t1 AT5G58360 47.458 59 31 0 42 100 227 285 2.07e-14 67.8
MS.gene41094.t1 AT5G22240 43.750 64 36 0 38 101 95 158 2.15e-13 63.9

Find 16 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTTAACTCACGTGACTTCT+AGG 0.227420 1.2:+45578479 MS.gene41094:CDS
AAATCATCTTTGAAAGGATT+TGG 0.279931 1.2:+45578207 MS.gene41094:CDS
TTCAATGTTGCAGATGATAT+TGG 0.300853 1.2:+45578296 MS.gene41094:CDS
CGGTGTTGTGTTGGTTGTGC+TGG 0.393381 1.2:-45578157 None:intergenic
TTGAAAGGATTTGGAAGAGT+TGG 0.393509 1.2:+45578216 MS.gene41094:CDS
CCGAATGATGTGTTTGTTCT+CGG 0.398611 1.2:-45578177 None:intergenic
CCTAGAAGTCACGTGAGTTA+AGG 0.446074 1.2:-45578479 None:intergenic
TTTGGAAGAGTTGGAAATGA+AGG 0.455515 1.2:+45578225 MS.gene41094:CDS
CCGAGAACAAACACATCATT+CGG 0.478560 1.2:+45578177 MS.gene41094:CDS
GAATGTCGAAAATCAAGATA+AGG 0.484941 1.2:-45578276 None:intergenic
AATGTCGAAAATCAAGATAA+GGG 0.494536 1.2:-45578275 None:intergenic
CTGAATTCGAAGGAACATCA+TGG 0.512456 1.2:+45578375 MS.gene41094:CDS
TCAGAGAAATCATCTTTGAA+AGG 0.539145 1.2:+45578201 MS.gene41094:CDS
GTTTGTTCTCGGTGTTGTGT+TGG 0.550067 1.2:-45578166 None:intergenic
TGAATTCGAAGGAACATCAT+GGG 0.596245 1.2:+45578376 MS.gene41094:CDS
TGGAAATGAAGGTGTAGCTG+TGG 0.614010 1.2:+45578236 MS.gene41094:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AATGTCGAAAATCAAGATAA+GGG - chr1.2:45578278-45578297 None:intergenic 25.0%
!! AAATCATCTTTGAAAGGATT+TGG + chr1.2:45578207-45578226 MS.gene41094:CDS 25.0%
GAATGTCGAAAATCAAGATA+AGG - chr1.2:45578279-45578298 None:intergenic 30.0%
TCAGAGAAATCATCTTTGAA+AGG + chr1.2:45578201-45578220 MS.gene41094:CDS 30.0%
TTCAATGTTGCAGATGATAT+TGG + chr1.2:45578296-45578315 MS.gene41094:CDS 30.0%
! TTAGAGCTTTTACTGAGATT+TGG + chr1.2:45578406-45578425 MS.gene41094:CDS 30.0%
! TTTTCTTCAACTGAATTCGA+AGG + chr1.2:45578365-45578384 MS.gene41094:CDS 30.0%
!!! TTAAGTCTGGTTTTTCATCT+GGG + chr1.2:45578445-45578464 MS.gene41094:CDS 30.0%
TGAATTCGAAGGAACATCAT+GGG + chr1.2:45578376-45578395 MS.gene41094:CDS 35.0%
TTGAAAGGATTTGGAAGAGT+TGG + chr1.2:45578216-45578235 MS.gene41094:CDS 35.0%
TTTGGAAGAGTTGGAAATGA+AGG + chr1.2:45578225-45578244 MS.gene41094:CDS 35.0%
! GCTTTTACTGAGATTTGGAA+TGG + chr1.2:45578411-45578430 MS.gene41094:CDS 35.0%
!!! GTTAAGTCTGGTTTTTCATC+TGG + chr1.2:45578444-45578463 MS.gene41094:CDS 35.0%
CCGAATGATGTGTTTGTTCT+CGG - chr1.2:45578180-45578199 None:intergenic 40.0%
CCGAGAACAAACACATCATT+CGG + chr1.2:45578177-45578196 MS.gene41094:CDS 40.0%
CTGAATTCGAAGGAACATCA+TGG + chr1.2:45578375-45578394 MS.gene41094:CDS 40.0%
! GGAGTTTTCTCTGTTAAGTC+TGG + chr1.2:45578432-45578451 MS.gene41094:CDS 40.0%
! TGGAAATGAAGGTGTAGCTG+TGG + chr1.2:45578236-45578255 MS.gene41094:CDS 45.0%
!! GTTTGTTCTCGGTGTTGTGT+TGG - chr1.2:45578169-45578188 None:intergenic 45.0%
!! CGGTGTTGTGTTGGTTGTGC+TGG - chr1.2:45578160-45578179 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 45578129 45578500 45578129 ID=MS.gene41094
chr1.2 mRNA 45578129 45578500 45578129 ID=MS.gene41094.t1;Parent=MS.gene41094
chr1.2 exon 45578129 45578500 45578129 ID=MS.gene41094.t1.exon1;Parent=MS.gene41094.t1
chr1.2 CDS 45578129 45578500 45578129 ID=cds.MS.gene41094.t1;Parent=MS.gene41094.t1
Gene Sequence

>MS.gene41094

AAAGACAGAGACATTACTGAAACTTCAACCAGCACAACCAACACAACACCGAGAACAAACACATCATTCGGCTCAGAGAAATCATCTTTGAAAGGATTTGGAAGAGTTGGAAATGAAGGTGTAGCTGTGGAGAAAGATTCTGATGACCCTTATCTTGATTTTCGACATTCAATGTTGCAGATGATATTGGAGAATGAGATATATTCTAAAGATGATCTTAGAGAGCTTTTGAACTGTTTTCTTCAACTGAATTCGAAGGAACATCATGGGATTATTGTTAGAGCTTTTACTGAGATTTGGAATGGAGTTTTCTCTGTTAAGTCTGGTTTTTCATCTGGGTTTCACGTTAACCTTAACTCACGTGACTTCTAG
Protein sequence

>MS.gene41094.t1

KDRDITETSTSTTNTTPRTNTSFGSEKSSLKGFGRVGNEGVAVEKDSDDPYLDFRHSMLQMILENEIYSKDDLRELLNCFLQLNSKEHHGIIVRAFTEIWNGVFSVKSGFSSGFHVNLNSRDF