AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene22689


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene22689.t1 MTR_7g117270 98.246 114 2 0 1 114 183 296 1.38e-74 230
MS.gene22689.t1 MTR_3g083350 43.860 114 56 1 1 114 164 269 5.72e-22 89.7
MS.gene22689.t1 MTR_1g032040 38.261 115 62 3 2 114 136 243 6.64e-14 66.6
MS.gene22689.t1 MTR_1g032380 38.261 115 62 3 2 114 136 243 6.64e-14 66.6
MS.gene22689.t1 MTR_1g072550 38.261 115 62 3 2 114 136 243 1.05e-13 65.9
MS.gene22689.t1 MTR_0153s0070 38.462 78 46 1 2 77 111 188 1.24e-12 62.8
MS.gene22689.t1 MTR_3g105530 38.462 78 46 1 2 77 134 211 1.34e-12 62.8
MS.gene22689.t1 MTR_3g074730 46.154 78 35 2 6 77 159 235 1.45e-12 62.8
MS.gene22689.t1 MTR_0153s0070 38.462 78 46 1 2 77 141 218 1.59e-12 62.4
MS.gene22689.t1 MTR_6g033595 37.143 105 57 3 5 101 149 252 8.80e-11 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene22689.t1 AT4G01037 77.193 114 26 0 1 114 175 288 1.50e-57 186
MS.gene22689.t1 AT5G62990 42.609 115 55 2 1 114 167 271 2.68e-21 87.8
MS.gene22689.t1 AT1G79120 31.667 120 69 2 1 110 156 272 2.78e-13 65.1
MS.gene22689.t1 AT1G79120 31.667 120 69 2 1 110 156 272 2.78e-13 65.1
MS.gene22689.t1 AT4G08940 49.315 73 35 2 6 77 167 238 4.62e-13 64.3
MS.gene22689.t1 AT3G63090 35.652 115 65 4 2 114 139 246 1.39e-12 62.8
MS.gene22689.t1 AT5G48040 41.333 75 43 1 5 78 144 218 1.60e-12 62.8

Find 25 sgRNAs with CRISPR-Local

Find 28 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGGCATTTGGCGAATGATTT+AGG 0.190368 7.4:+1223164 MS.gene22689:CDS
GTTAGAGAAAATTGGGCATT+TGG 0.343668 7.4:+1223151 MS.gene22689:CDS
AGCAGAATTTAATTATAGAT+AGG 0.391261 7.4:+1223354 MS.gene22689:CDS
TTCGCGACACCATTTGTCAT+AGG 0.422027 7.4:+1223201 MS.gene22689:CDS
AAAGTTGTTCAGACTGAAAG+AGG 0.431002 7.4:+1223239 MS.gene22689:CDS
TGCACTTGAATTAACACATT+GGG 0.442420 7.4:+1223265 MS.gene22689:CDS
TTTGAAAGATTAAGACCCTT+AGG 0.447819 7.4:-1223404 None:intergenic
CTCTGGATACCTATGACAAA+TGG 0.461089 7.4:-1223210 None:intergenic
AAGGGTCTTAATCTTTCAAA+AGG 0.467749 7.4:+1223407 MS.gene22689:CDS
AGCTTTACTCTATTAAACTT+AGG 0.478690 7.4:-1223380 None:intergenic
GCAGAATTTAATTATAGATA+GGG 0.485320 7.4:+1223355 MS.gene22689:CDS
TAATAGAGTAAAGCTTCCTA+AGG 0.486104 7.4:+1223388 MS.gene22689:CDS
ATGTTGTTGTTACTAAGCTT+AGG 0.506899 7.4:+1223093 MS.gene22689:CDS
CAATGTGTTAATTCAAGTGC+AGG 0.536567 7.4:-1223263 None:intergenic
GAAATTGTTGATGATGCCGT+TGG 0.539200 7.4:+1223115 MS.gene22689:CDS
TGCGGCCGAGCTGTCTGCGG+AGG 0.560311 7.4:+1223307 MS.gene22689:CDS
TTCTGCGGCCGAGCTGTCTG+CGG 0.565854 7.4:+1223304 MS.gene22689:CDS
CTGCACTTGAATTAACACAT+TGG 0.577423 7.4:+1223264 MS.gene22689:CDS
GGAGAATCGAATTAGAGAAG+TGG 0.581481 7.4:+1223328 MS.gene22689:CDS
TCCTCAGCTTGCAGTTTCTG+CGG 0.583709 7.4:+1223289 MS.gene22689:CDS
GCCGCAGAAACTGCAAGCTG+AGG 0.600466 7.4:-1223290 None:intergenic
AATAGAGTAAAGCTTCCTAA+GGG 0.615219 7.4:+1223389 MS.gene22689:CDS
ATTCTCCTCCGCAGACAGCT+CGG 0.615702 7.4:-1223312 None:intergenic
TGATGATGCCGTTGGAAAAG+CGG 0.641358 7.4:+1223123 MS.gene22689:CDS
ATGGTGTCGCGAAATTCTCG+AGG 0.669888 7.4:-1223191 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGCAGAATTTAATTATAGAT+AGG + chr7.4:1223354-1223373 MS.gene22689:CDS 20.0%
!! GCAGAATTTAATTATAGATA+GGG + chr7.4:1223355-1223374 MS.gene22689:CDS 20.0%
! AGCTTTACTCTATTAAACTT+AGG - chr7.4:1223383-1223402 None:intergenic 25.0%
!! GGATTTTGTTAGAGAAAATT+GGG + chr7.4:1223144-1223163 MS.gene22689:CDS 25.0%
!! TGAACAACTTTAAAAAACTC+TGG - chr7.4:1223230-1223249 None:intergenic 25.0%
AATAGAGTAAAGCTTCCTAA+GGG + chr7.4:1223389-1223408 MS.gene22689:CDS 30.0%
TAATAGAGTAAAGCTTCCTA+AGG + chr7.4:1223388-1223407 MS.gene22689:CDS 30.0%
TGCACTTGAATTAACACATT+GGG + chr7.4:1223265-1223284 MS.gene22689:CDS 30.0%
TTTGAAAGATTAAGACCCTT+AGG - chr7.4:1223407-1223426 None:intergenic 30.0%
! ATGTTGTTGTTACTAAGCTT+AGG + chr7.4:1223093-1223112 MS.gene22689:CDS 30.0%
! CGGATTTTGTTAGAGAAAAT+TGG + chr7.4:1223143-1223162 MS.gene22689:CDS 30.0%
AAAGTTGTTCAGACTGAAAG+AGG + chr7.4:1223239-1223258 MS.gene22689:CDS 35.0%
CAATGTGTTAATTCAAGTGC+AGG - chr7.4:1223266-1223285 None:intergenic 35.0%
CTGCACTTGAATTAACACAT+TGG + chr7.4:1223264-1223283 MS.gene22689:CDS 35.0%
GTTAGAGAAAATTGGGCATT+TGG + chr7.4:1223151-1223170 MS.gene22689:CDS 35.0%
!! AACAAAATCCGCTTTTCCAA+CGG - chr7.4:1223134-1223153 None:intergenic 35.0%
CTCTGGATACCTATGACAAA+TGG - chr7.4:1223213-1223232 None:intergenic 40.0%
GGAGAATCGAATTAGAGAAG+TGG + chr7.4:1223328-1223347 MS.gene22689:CDS 40.0%
!! GAAATTGTTGATGATGCCGT+TGG + chr7.4:1223115-1223134 MS.gene22689:CDS 40.0%
GGGCATTTGGCGAATGATTT+AGG + chr7.4:1223164-1223183 MS.gene22689:CDS 45.0%
TTCGCGACACCATTTGTCAT+AGG + chr7.4:1223201-1223220 MS.gene22689:CDS 45.0%
! TGATGATGCCGTTGGAAAAG+CGG + chr7.4:1223123-1223142 MS.gene22689:CDS 45.0%
TCCTCAGCTTGCAGTTTCTG+CGG + chr7.4:1223289-1223308 MS.gene22689:CDS 50.0%
!! ATGGTGTCGCGAAATTCTCG+AGG - chr7.4:1223194-1223213 None:intergenic 50.0%
ATTCTCCTCCGCAGACAGCT+CGG - chr7.4:1223315-1223334 None:intergenic 55.0%
GCCGCAGAAACTGCAAGCTG+AGG - chr7.4:1223293-1223312 None:intergenic 60.0%
TTCTGCGGCCGAGCTGTCTG+CGG + chr7.4:1223304-1223323 MS.gene22689:CDS 65.0%
TGCGGCCGAGCTGTCTGCGG+AGG + chr7.4:1223307-1223326 MS.gene22689:CDS 75.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 1223086 1223428 1223086 ID=MS.gene22689
chr7.4 mRNA 1223086 1223428 1223086 ID=MS.gene22689.t1;Parent=MS.gene22689
chr7.4 exon 1223086 1223428 1223086 ID=MS.gene22689.t1.exon1;Parent=MS.gene22689.t1
chr7.4 CDS 1223086 1223428 1223086 ID=cds.MS.gene22689.t1;Parent=MS.gene22689.t1
Gene Sequence

>MS.gene22689

ATGGAAGATGTTGTTGTTACTAAGCTTAGGAAATTGTTGATGATGCCGTTGGAAAAGCGGATTTTGTTAGAGAAAATTGGGCATTTGGCGAATGATTTAGGACTTCCTCGAGAATTTCGCGACACCATTTGTCATAGGTATCCAGAGTTTTTTAAAGTTGTTCAGACTGAAAGAGGTCCTGCACTTGAATTAACACATTGGGATCCTCAGCTTGCAGTTTCTGCGGCCGAGCTGTCTGCGGAGGAGAATCGAATTAGAGAAGTGGAAGAGCAGAATTTAATTATAGATAGGGCTCCTAAGTTTAATAGAGTAAAGCTTCCTAAGGGTCTTAATCTTTCAAAAG

Protein sequence

>MS.gene22689.t1

MEDVVVTKLRKLLMMPLEKRILLEKIGHLANDLGLPREFRDTICHRYPEFFKVVQTERGPALELTHWDPQLAVSAAELSAEENRIREVEEQNLIIDRAPKFNRVKLPKGLNLSK