AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene047619


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene047619.t1 MTR_5g017110 72.222 72 19 1 1 71 132 203 4.77e-30 109
MS.gene047619.t1 MTR_5g017140 67.143 70 22 1 1 69 131 200 9.19e-27 100
MS.gene047619.t1 MTR_0154s0040 61.972 71 26 1 1 71 129 198 4.77e-24 93.6
MS.gene047619.t1 MTR_0154s0020 61.972 71 26 1 1 71 129 198 4.81e-24 93.6
MS.gene047619.t1 MTR_0189s0010 60.563 71 27 1 1 71 149 218 1.92e-23 92.0
MS.gene047619.t1 MTR_5g059880 45.070 71 36 2 1 69 316 385 8.30e-13 62.8
MS.gene047619.t1 MTR_3g096230 38.889 72 43 1 1 71 370 441 2.89e-11 58.5
MS.gene047619.t1 MTR_3g096230 38.889 72 43 1 1 71 370 441 2.94e-11 58.5
MS.gene047619.t1 MTR_1g071480 37.500 80 49 1 1 79 130 209 3.48e-11 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene047619.t1 AT4G36950 56.164 73 29 2 1 72 132 202 1.25e-19 81.6
MS.gene047619.t1 AT3G50310 51.316 76 33 2 1 72 132 207 9.12e-18 76.6
MS.gene047619.t1 AT5G67080 49.333 75 35 1 1 72 134 208 1.17e-16 73.6
MS.gene047619.t1 AT4G08500 45.833 72 35 2 1 69 457 527 2.28e-14 67.4
MS.gene047619.t1 AT2G05060 43.421 76 36 2 1 71 146 219 5.40e-12 60.5
MS.gene047619.t1 AT3G04810 37.500 80 49 1 1 79 130 209 9.03e-11 57.4
MS.gene047619.t1 AT3G04810 37.500 80 49 1 1 79 130 209 9.03e-11 57.4
MS.gene047619.t1 AT3G04810 37.500 80 49 1 1 79 130 209 9.03e-11 57.4

Find 16 sgRNAs with CRISPR-Local

Find 26 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCGAGATTGCTAAGGTAAA+AGG 0.241564 5.3:-9516402 MS.gene047619:CDS
ATGAATCGCCAACAGATATA+TGG 0.291595 5.3:-9516305 MS.gene047619:CDS
ACATTCTCACTCACTGCTTC+CGG 0.376735 5.3:+9516330 None:intergenic
GATAATTCATTTGAAATCAA+TGG 0.420640 5.3:+9516170 None:intergenic
TGCTAAGGTAAAAGGTTTCA+AGG 0.431990 5.3:-9516394 MS.gene047619:CDS
TGGATGTGCCGTTGTGGAAA+TGG 0.439964 5.3:-9516277 MS.gene047619:CDS
CCAACAGATATATGGGCTCT+TGG 0.446990 5.3:-9516297 MS.gene047619:CDS
TCTTCTCCCAGTCCAATATG+AGG 0.465742 5.3:+9516197 None:intergenic
TGAATCGCCAACAGATATAT+GGG 0.475173 5.3:-9516304 MS.gene047619:CDS
CCAAGAGCCCATATATCTGT+TGG 0.559712 5.3:+9516297 None:intergenic
ATCGAATTTCGAGATTGCTA+AGG 0.565609 5.3:-9516409 MS.gene047619:CDS
GGCTCTTGGATGTGCCGTTG+TGG 0.576855 5.3:-9516283 MS.gene047619:CDS
AACTCCGATGTATATGTCGC+CGG 0.580385 5.3:-9516349 MS.gene047619:CDS
GCTAAGGTAAAAGGTTTCAA+GGG 0.582822 5.3:-9516393 MS.gene047619:CDS
TTCAGTAACCATTTCCACAA+CGG 0.609861 5.3:+9516269 None:intergenic
GCTTCCGGCGACATATACAT+CGG 0.745170 5.3:+9516345 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TAAGATGCAAGAAAAATATG+TGG - chr5.3:9516403-9516422 MS.gene047619:CDS 25.0%
AAGGTTTCAAGGGTGAAAAA+TGG - chr5.3:9516249-9516268 MS.gene047619:CDS 35.0%
AGGTTTCAAGGGTGAAAAAT+GGG - chr5.3:9516250-9516269 MS.gene047619:CDS 35.0%
ATCGAATTTCGAGATTGCTA+AGG - chr5.3:9516223-9516242 MS.gene047619:CDS 35.0%
ATGAATCGCCAACAGATATA+TGG - chr5.3:9516327-9516346 MS.gene047619:CDS 35.0%
GATGCAAGAAAAATATGTGG+TGG - chr5.3:9516406-9516425 MS.gene047619:CDS 35.0%
GCTAAGGTAAAAGGTTTCAA+GGG - chr5.3:9516239-9516258 MS.gene047619:CDS 35.0%
GGTTACTGAAAAATCTTTCG+TGG - chr5.3:9516376-9516395 MS.gene047619:CDS 35.0%
TGAATCGCCAACAGATATAT+GGG - chr5.3:9516328-9516347 MS.gene047619:CDS 35.0%
TGCTAAGGTAAAAGGTTTCA+AGG - chr5.3:9516238-9516257 MS.gene047619:CDS 35.0%
TTCAGTAACCATTTCCACAA+CGG + chr5.3:9516366-9516385 None:intergenic 35.0%
TTCGAGATTGCTAAGGTAAA+AGG - chr5.3:9516230-9516249 MS.gene047619:CDS 35.0%
! TTTTTGCCTCATATTGGACT+GGG - chr5.3:9516429-9516448 MS.gene047619:CDS 35.0%
AGGGTGAAAAATGGGAATGT+AGG - chr5.3:9516258-9516277 MS.gene047619:CDS 40.0%
GGGTGAAAAATGGGAATGTA+GGG - chr5.3:9516259-9516278 MS.gene047619:CDS 40.0%
GGTGAAAAATGGGAATGTAG+GGG - chr5.3:9516260-9516279 MS.gene047619:CDS 40.0%
! GTTTTTGCCTCATATTGGAC+TGG - chr5.3:9516428-9516447 MS.gene047619:CDS 40.0%
! TGGTGGTTTTTGCCTCATAT+TGG - chr5.3:9516423-9516442 MS.gene047619:CDS 40.0%
AACTCCGATGTATATGTCGC+CGG - chr5.3:9516283-9516302 MS.gene047619:CDS 45.0%
ACATTCTCACTCACTGCTTC+CGG + chr5.3:9516305-9516324 None:intergenic 45.0%
CCAACAGATATATGGGCTCT+TGG - chr5.3:9516335-9516354 MS.gene047619:CDS 45.0%
CCAAGAGCCCATATATCTGT+TGG + chr5.3:9516338-9516357 None:intergenic 45.0%
TCTTCTCCCAGTCCAATATG+AGG + chr5.3:9516438-9516457 None:intergenic 45.0%
GCTTCCGGCGACATATACAT+CGG + chr5.3:9516290-9516309 None:intergenic 50.0%
! TGGATGTGCCGTTGTGGAAA+TGG - chr5.3:9516355-9516374 MS.gene047619:CDS 50.0%
! GGCTCTTGGATGTGCCGTTG+TGG - chr5.3:9516349-9516368 MS.gene047619:CDS 60.0%


Chromosome Type Strat End Strand Name
chr5.3 gene 9516176 9516478 9516176 ID=MS.gene047619
chr5.3 mRNA 9516176 9516478 9516176 ID=MS.gene047619.t1;Parent=MS.gene047619
chr5.3 exon 9516176 9516478 9516176 ID=MS.gene047619.t1.exon1;Parent=MS.gene047619.t1
chr5.3 CDS 9516176 9516478 9516176 ID=cds.MS.gene047619.t1;Parent=MS.gene047619.t1
Gene Sequence

>MS.gene047619

ATGAAGCTGTCAAATATTCTTGTATTTGATGATGACAATGTTAAAATATCGAATTTCGAGATTGCTAAGGTAAAAGGTTTCAAGGGTGAAAAATGGGAATGTAGGGGAACTCCGATGTATATGTCGCCGGAAGCAGTGAGTGAGAATGTTTATGAATCGCCAACAGATATATGGGCTCTTGGATGTGCCGTTGTGGAAATGGTTACTGAAAAATCTTTCGTGGAATGTAAGATGCAAGAAAAATATGTGGTGGTTTTTGCCTCATATTGGACTGGGAGAAGAAATACCATTGATTTCAAATGA

Protein sequence

>MS.gene047619.t1

MKLSNILVFDDDNVKISNFEIAKVKGFKGEKWECRGTPMYMSPEAVSENVYESPTDIWALGCAVVEMVTEKSFVECKMQEKYVVVFASYWTGRRNTIDFK