AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene03763

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene03763.t1 MTR_4g055920 90.698 86 8 0 8 93 181 266 9.81e-47 160
MS.gene03763.t1 MTR_2g084615 68.132 91 29 0 3 93 154 244 6.28e-37 132
MS.gene03763.t1 MTR_4g055910 88.333 60 7 0 1 60 70 129 4.12e-32 110
MS.gene03763.t1 MTR_2g084620 64.634 82 29 0 12 93 180 261 1.74e-30 114
MS.gene03763.t1 MTR_2g084620 64.634 82 29 0 12 93 180 261 2.33e-30 114
MS.gene03763.t1 MTR_4g076180 46.067 89 48 0 5 93 489 577 1.84e-19 83.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene03763.t1 AT5G22760 59.783 92 37 0 2 93 168 259 2.10e-34 125
MS.gene03763.t1 AT5G22760 59.783 92 37 0 2 93 168 259 2.42e-34 125
MS.gene03763.t1 AT5G35210 57.317 82 35 0 12 93 184 265 1.37e-27 106
MS.gene03763.t1 AT5G35210 57.317 82 35 0 12 93 184 265 1.95e-27 105
MS.gene03763.t1 AT5G12400 42.857 91 52 0 3 93 395 485 3.74e-18 79.3

Find 29 sgRNAs with CRISPR-Local

Find 31 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACAAATTCATCGAAAGTAAA+TGG 0.252438 4.3:-45280181 None:intergenic
TCACATCTCCTATCTGTATA+TGG 0.258148 4.3:+45280121 MS.gene03763:CDS
TGTCTGTCCCTTGATAATTC+AGG 0.360762 4.3:-45280210 None:intergenic
TGATTCTGTATTTGGTGTAA+TGG 0.369120 4.3:+45280384 MS.gene03763:CDS
TTTATTACAAGTGCAAAGAT+TGG 0.371188 4.3:+45280327 MS.gene03763:CDS
TTTACTTTCGATGAATTTGT+TGG 0.389003 4.3:+45280184 MS.gene03763:CDS
GATTCTGTATTTGGTGTAAT+GGG 0.412089 4.3:+45280385 MS.gene03763:CDS
TTGCATTTGTCGCCATCGTC+CGG 0.440498 4.3:+45280070 MS.gene03763:CDS
CTTGAAAGCCTGTCGTCTGA+TGG 0.444948 4.3:+45280283 MS.gene03763:CDS
CACATCTCCTATCTGTATAT+GGG 0.448254 4.3:+45280122 MS.gene03763:CDS
GTCTGTCCCTTGATAATTCA+GGG 0.472107 4.3:-45280209 None:intergenic
GTTGGTGCCCTGAATTATCA+AGG 0.474697 4.3:+45280202 MS.gene03763:CDS
CTTAGGCACACCGATAGTTC+CGG 0.476815 4.3:-45280089 None:intergenic
AAATGCAACGGCGGAGGCAA+AGG 0.490425 4.3:-45280055 None:intergenic
AATTCATATTTCTTTGATGC+GGG 0.494187 4.3:+45280246 MS.gene03763:CDS
TTGAAAGCCTGTCGTCTGAT+GGG 0.516247 4.3:+45280284 MS.gene03763:CDS
GGCGACAAATGCAACGGCGG+AGG 0.529494 4.3:-45280061 None:intergenic
AGATGTGAGACACTCGGCTT+AGG 0.530667 4.3:-45280106 None:intergenic
TAAATGGATGAAGAAACAAT+CGG 0.532907 4.3:-45280165 None:intergenic
TCGCCATCGTCCGGAACTAT+CGG 0.533089 4.3:+45280079 MS.gene03763:CDS
TTTCTTTGATGCGGGTGTTG+AGG 0.537594 4.3:+45280254 MS.gene03763:CDS
AAATGGATGAAGAAACAATC+GGG 0.558564 4.3:-45280164 None:intergenic
CAATTCATATTTCTTTGATG+CGG 0.584789 4.3:+45280245 MS.gene03763:CDS
GCTCAAACCCATCAGACGAC+AGG 0.593871 4.3:-45280291 None:intergenic
TTGGTGCCCTGAATTATCAA+GGG 0.596051 4.3:+45280203 MS.gene03763:CDS
GACGATGGCGACAAATGCAA+CGG 0.607184 4.3:-45280067 None:intergenic
GATAGGAGATGTGAGACACT+CGG 0.668003 4.3:-45280112 None:intergenic
ACACCGATAGTTCCGGACGA+TGG 0.681888 4.3:-45280082 None:intergenic
GATGGCGACAAATGCAACGG+CGG 0.702395 4.3:-45280064 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AATTCATATTTCTTTGATGC+GGG + chr4.3:45280246-45280265 MS.gene03763:CDS 25.0%
! ACAAATTCATCGAAAGTAAA+TGG - chr4.3:45280184-45280203 None:intergenic 25.0%
! CAATTCATATTTCTTTGATG+CGG + chr4.3:45280245-45280264 MS.gene03763:CDS 25.0%
! TAAATGGATGAAGAAACAAT+CGG - chr4.3:45280168-45280187 None:intergenic 25.0%
! TTTACTTTCGATGAATTTGT+TGG + chr4.3:45280184-45280203 MS.gene03763:CDS 25.0%
! TTTATTACAAGTGCAAAGAT+TGG + chr4.3:45280327-45280346 MS.gene03763:CDS 25.0%
!!! TGTTTTTGTGATTCTGTATT+TGG + chr4.3:45280376-45280395 MS.gene03763:CDS 25.0%
AAATGGATGAAGAAACAATC+GGG - chr4.3:45280167-45280186 None:intergenic 30.0%
TCAAAAACCCATATACAGAT+AGG - chr4.3:45280132-45280151 None:intergenic 30.0%
!! GATTCTGTATTTGGTGTAAT+GGG + chr4.3:45280385-45280404 MS.gene03763:CDS 30.0%
!! TGATTCTGTATTTGGTGTAA+TGG + chr4.3:45280384-45280403 MS.gene03763:CDS 30.0%
CACATCTCCTATCTGTATAT+GGG + chr4.3:45280122-45280141 MS.gene03763:CDS 35.0%
TCACATCTCCTATCTGTATA+TGG + chr4.3:45280121-45280140 MS.gene03763:CDS 35.0%
! GTCTGTCCCTTGATAATTCA+GGG - chr4.3:45280212-45280231 None:intergenic 40.0%
! TGTCTGTCCCTTGATAATTC+AGG - chr4.3:45280213-45280232 None:intergenic 40.0%
! TTGGTGCCCTGAATTATCAA+GGG + chr4.3:45280203-45280222 MS.gene03763:CDS 40.0%
GATAGGAGATGTGAGACACT+CGG - chr4.3:45280115-45280134 None:intergenic 45.0%
TTGAAAGCCTGTCGTCTGAT+GGG + chr4.3:45280284-45280303 MS.gene03763:CDS 45.0%
! GTTGGTGCCCTGAATTATCA+AGG + chr4.3:45280202-45280221 MS.gene03763:CDS 45.0%
! TTTCTTTGATGCGGGTGTTG+AGG + chr4.3:45280254-45280273 MS.gene03763:CDS 45.0%
AGATGTGAGACACTCGGCTT+AGG - chr4.3:45280109-45280128 None:intergenic 50.0%
CTTAGGCACACCGATAGTTC+CGG - chr4.3:45280092-45280111 None:intergenic 50.0%
CTTGAAAGCCTGTCGTCTGA+TGG + chr4.3:45280283-45280302 MS.gene03763:CDS 50.0%
GACGATGGCGACAAATGCAA+CGG - chr4.3:45280070-45280089 None:intergenic 50.0%
TTGCATTTGTCGCCATCGTC+CGG + chr4.3:45280070-45280089 MS.gene03763:CDS 50.0%
AAATGCAACGGCGGAGGCAA+AGG - chr4.3:45280058-45280077 None:intergenic 55.0%
ACACCGATAGTTCCGGACGA+TGG - chr4.3:45280085-45280104 None:intergenic 55.0%
GATGGCGACAAATGCAACGG+CGG - chr4.3:45280067-45280086 None:intergenic 55.0%
GCTCAAACCCATCAGACGAC+AGG - chr4.3:45280294-45280313 None:intergenic 55.0%
TCGCCATCGTCCGGAACTAT+CGG + chr4.3:45280079-45280098 MS.gene03763:CDS 55.0%
GGCGACAAATGCAACGGCGG+AGG - chr4.3:45280064-45280083 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 45280052 45280423 45280052 ID=MS.gene03763
chr4.3 mRNA 45280052 45280423 45280052 ID=MS.gene03763.t1;Parent=MS.gene03763
chr4.3 exon 45280052 45280423 45280052 ID=MS.gene03763.t1.exon1;Parent=MS.gene03763.t1
chr4.3 CDS 45280052 45280423 45280052 ID=cds.MS.gene03763.t1;Parent=MS.gene03763.t1
Gene Sequence

>MS.gene03763

ATGCCTTTGCCTCCGCCGTTGCATTTGTCGCCATCGTCCGGAACTATCGGTGTGCCTAAGCCGAGTGTCTCACATCTCCTATCTGTATATGGGTTTTTGAGATCATTCAACACCCGATTGTTTCTTCATCCATTTACTTTCGATGAATTTGTTGGTGCCCTGAATTATCAAGGGACAGACACTTTGTTTGACGCAATTCATATTTCTTTGATGCGGGTGTTGAGGCGTCATCTTGAAAGCCTGTCGTCTGATGGGTTTGAGCTTGCATCACAATGTTTATTACAAGTGCAAAGATTGGAGCTTGCTCGATACGATGACTCAGTCTGTTTTTGTGATTCTGTATTTGGTGTAATGGGTACACAAAAGAATTAG
Protein sequence

>MS.gene03763.t1

MPLPPPLHLSPSSGTIGVPKPSVSHLLSVYGFLRSFNTRLFLHPFTFDEFVGALNYQGTDTLFDAIHISLMRVLRRHLESLSSDGFELASQCLLQVQRLELARYDDSVCFCDSVFGVMGTQKN