AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene058433


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene058433.t1 MTR_1g015000 95.105 143 6 1 1 143 1 142 3.65e-98 278
MS.gene058433.t1 MTR_3g105330 59.060 149 49 4 1 143 1 143 4.50e-55 169
MS.gene058433.t1 MTR_4g019870 31.034 145 71 4 2 138 13 136 3.52e-18 75.9
MS.gene058433.t1 MTR_7g066070 32.283 127 65 2 2 128 22 127 1.12e-15 69.3
MS.gene058433.t1 MTR_0027s0220 30.000 140 76 4 2 139 27 146 6.13e-15 67.8
MS.gene058433.t1 MTR_4g065660 30.645 124 64 3 5 128 35 136 3.93e-14 65.5
MS.gene058433.t1 MTR_4g065123 28.148 135 75 2 1 135 27 139 1.08e-13 64.3
MS.gene058433.t1 MTR_4g064963 31.579 133 66 4 5 133 46 157 1.49e-13 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene058433.t1 AT5G20650 55.102 147 61 3 1 143 1 146 1.18e-50 158
MS.gene058433.t1 AT2G26975 33.577 137 64 3 1 131 24 139 3.99e-20 80.9
MS.gene058433.t1 AT5G59040 34.375 128 63 2 1 128 29 135 2.94e-17 73.6
MS.gene058433.t1 AT5G59030 27.778 144 80 3 5 142 45 170 1.42e-13 64.7
MS.gene058433.t1 AT2G37925 30.469 128 71 2 1 128 29 138 1.45e-13 63.9
MS.gene058433.t1 AT3G46900 26.761 142 78 4 7 142 35 156 4.28e-13 63.2

Find 31 sgRNAs with CRISPR-Local

Find 40 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCAACATTCTACCAATATT+TGG 0.138215 1.4:-6940213 MS.gene058433:CDS
GAGATTCGGACTCCTCTTCT+TGG 0.249119 1.4:-6940128 MS.gene058433:CDS
ACCAATATTTGGAAAATATT+CGG 0.254322 1.4:-6940202 MS.gene058433:CDS
TCCTCTTCTTGGGTTGAATA+AGG 0.262656 1.4:-6940117 MS.gene058433:CDS
TGACACTCTTATTTGATTCA+TGG 0.286816 1.4:-6940289 MS.gene058433:CDS
TGATGCACATGACATTATAT+TGG 0.315744 1.4:-6940322 MS.gene058433:CDS
GATGCACATGACATTATATT+GGG 0.333053 1.4:-6940321 MS.gene058433:CDS
CGTTTGGTTACTTCTTGTTT+AGG 0.336421 1.4:-6939971 MS.gene058433:CDS
ATTCATGGAAAACCAATTCA+TGG 0.342364 1.4:-6940274 MS.gene058433:CDS
TTGGCTATAATGTCGTTTAA+TGG 0.343696 1.4:-6940026 MS.gene058433:CDS
TTTGGTGTGAATTCTGCTAT+TGG 0.364233 1.4:-6940062 MS.gene058433:CDS
ATTGTGGTTGGTTTAACGTT+TGG 0.388729 1.4:-6939987 MS.gene058433:CDS
TAGATAACTCGTCCATGAAT+TGG 0.393378 1.4:+6940262 None:intergenic
AGATTCGGACTCCTCTTCTT+GGG 0.397569 1.4:-6940127 MS.gene058433:CDS
TTGGTGTGAATTCTGCTATT+GGG 0.404245 1.4:-6940061 MS.gene058433:CDS
ATTTGGAAAATATTCGGATT+CGG 0.414816 1.4:-6940196 MS.gene058433:CDS
AGTCGCCGGTGCCGGAGATT+CGG 0.431491 1.4:-6940142 MS.gene058433:CDS
TATTGGGTATTTGTTGATGT+TGG 0.437573 1.4:-6940045 MS.gene058433:CDS
GAGGAACAAGGTTGTTGAAT+CGG 0.457237 1.4:-6940090 MS.gene058433:CDS
TTGGGTTGAATAAGGTTTCG+AGG 0.486516 1.4:-6940109 MS.gene058433:CDS
AGAAGAGGAGTCCGAATCTC+CGG 0.488903 1.4:+6940131 None:intergenic
GAGGACGCAGTCGCCGGTGC+CGG 0.509370 1.4:-6940150 MS.gene058433:CDS
TGAGGGGAGGACGCAGTCGC+CGG 0.519658 1.4:-6940156 MS.gene058433:CDS
ACCTTATTCAACCCAAGAAG+AGG 0.545808 1.4:+6940116 None:intergenic
GGAGTCCGAATCTCCGGCAC+CGG 0.550760 1.4:+6940137 None:intergenic
TCAGAGTGAAGAAGAGGCTG+CGG 0.552122 1.4:-6939946 MS.gene058433:CDS
TAGGAGTCAGAGTGAAGAAG+AGG 0.579273 1.4:-6939952 MS.gene058433:CDS
CACAAACTAAGCACATGCAC+AGG 0.579857 1.4:+6939908 None:intergenic
GAATAAGGTTTCGAGGAACA+AGG 0.583225 1.4:-6940102 MS.gene058433:CDS
GCTATAATGTCGTTTAATGG+TGG 0.610087 1.4:-6940023 MS.gene058433:CDS
ATGCACATGACATTATATTG+GGG 0.668922 1.4:-6940320 MS.gene058433:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ACCAATATTTGGAAAATATT+CGG - chr1.4:6940035-6940054 MS.gene058433:CDS 20.0%
! ATTTGGAAAATATTCGGATT+CGG - chr1.4:6940041-6940060 MS.gene058433:CDS 25.0%
!! TCCGAATATTTTCCAAATAT+TGG + chr1.4:6940039-6940058 None:intergenic 25.0%
ATGCACATGACATTATATTG+GGG - chr1.4:6939917-6939936 MS.gene058433:CDS 30.0%
ATTCATGGAAAACCAATTCA+TGG - chr1.4:6939963-6939982 MS.gene058433:CDS 30.0%
GATGCACATGACATTATATT+GGG - chr1.4:6939916-6939935 MS.gene058433:CDS 30.0%
TGATGCACATGACATTATAT+TGG - chr1.4:6939915-6939934 MS.gene058433:CDS 30.0%
TGCAACATTCTACCAATATT+TGG - chr1.4:6940024-6940043 MS.gene058433:CDS 30.0%
! TATTGGGTATTTGTTGATGT+TGG - chr1.4:6940192-6940211 MS.gene058433:CDS 30.0%
! TGACACTCTTATTTGATTCA+TGG - chr1.4:6939948-6939967 MS.gene058433:CDS 30.0%
! TTGGCTATAATGTCGTTTAA+TGG - chr1.4:6940211-6940230 MS.gene058433:CDS 30.0%
!!! GTTGTTGAATCGGTTTTATT+TGG - chr1.4:6940157-6940176 MS.gene058433:CDS 30.0%
TAGATAACTCGTCCATGAAT+TGG + chr1.4:6939978-6939997 None:intergenic 35.0%
TTGGTGTGAATTCTGCTATT+GGG - chr1.4:6940176-6940195 MS.gene058433:CDS 35.0%
! ATTCGGTTGAAGTTTTTCTC+TGG - chr1.4:6940058-6940077 MS.gene058433:CDS 35.0%
! CGTTTGGTTACTTCTTGTTT+AGG - chr1.4:6940266-6940285 MS.gene058433:CDS 35.0%
! GCTATAATGTCGTTTAATGG+TGG - chr1.4:6940214-6940233 MS.gene058433:CDS 35.0%
! TTGAAGTTTTTCTCTGGTGA+GGG - chr1.4:6940064-6940083 MS.gene058433:CDS 35.0%
! TTTGGTGTGAATTCTGCTAT+TGG - chr1.4:6940175-6940194 MS.gene058433:CDS 35.0%
!! ATTGTGGTTGGTTTAACGTT+TGG - chr1.4:6940250-6940269 MS.gene058433:CDS 35.0%
!! GTTTAATGGTGGTGTTTTTG+TGG - chr1.4:6940225-6940244 MS.gene058433:CDS 35.0%
ACCTTATTCAACCCAAGAAG+AGG + chr1.4:6940124-6940143 None:intergenic 40.0%
GAATAAGGTTTCGAGGAACA+AGG - chr1.4:6940135-6940154 MS.gene058433:CDS 40.0%
GAGGAACAAGGTTGTTGAAT+CGG - chr1.4:6940147-6940166 MS.gene058433:CDS 40.0%
! GTTGAAGTTTTTCTCTGGTG+AGG - chr1.4:6940063-6940082 MS.gene058433:CDS 40.0%
! GTTTTTGTGGCTATTGTGGT+TGG - chr1.4:6940238-6940257 MS.gene058433:CDS 40.0%
! TGAAGTTTTTCTCTGGTGAG+GGG - chr1.4:6940065-6940084 MS.gene058433:CDS 40.0%
!! TCCTCTTCTTGGGTTGAATA+AGG - chr1.4:6940120-6940139 MS.gene058433:CDS 40.0%
!! TGGTGTTTTTGTGGCTATTG+TGG - chr1.4:6940234-6940253 MS.gene058433:CDS 40.0%
!! TTGGGTTGAATAAGGTTTCG+AGG - chr1.4:6940128-6940147 MS.gene058433:CDS 40.0%
AGATTCGGACTCCTCTTCTT+GGG - chr1.4:6940110-6940129 MS.gene058433:CDS 45.0%
TAGGAGTCAGAGTGAAGAAG+AGG - chr1.4:6940285-6940304 MS.gene058433:CDS 45.0%
AGAAGAGGAGTCCGAATCTC+CGG + chr1.4:6940109-6940128 None:intergenic 50.0%
GAGATTCGGACTCCTCTTCT+TGG - chr1.4:6940109-6940128 MS.gene058433:CDS 50.0%
TCAGAGTGAAGAAGAGGCTG+CGG - chr1.4:6940291-6940310 MS.gene058433:CDS 50.0%
! AGTTTTTCTCTGGTGAGGGG+AGG - chr1.4:6940068-6940087 MS.gene058433:CDS 50.0%
GGAGTCCGAATCTCCGGCAC+CGG + chr1.4:6940103-6940122 None:intergenic 65.0%
! AGTCGCCGGTGCCGGAGATT+CGG - chr1.4:6940095-6940114 MS.gene058433:CDS 65.0%
TGAGGGGAGGACGCAGTCGC+CGG - chr1.4:6940081-6940100 MS.gene058433:CDS 70.0%
GAGGACGCAGTCGCCGGTGC+CGG - chr1.4:6940087-6940106 MS.gene058433:CDS 75.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 6939914 6940345 6939914 ID=MS.gene058433
chr1.4 mRNA 6939914 6940345 6939914 ID=MS.gene058433.t1;Parent=MS.gene058433
chr1.4 exon 6939914 6940345 6939914 ID=MS.gene058433.t1.exon1;Parent=MS.gene058433.t1
chr1.4 CDS 6939914 6940345 6939914 ID=cds.MS.gene058433.t1;Parent=MS.gene058433.t1
Gene Sequence

>MS.gene058433

ATGATGCACATGACATTATATTGGGGAAAAAACGTGACACTCTTATTTGATTCATGGAAAACCAATTCATGGACGAGTTATCTACTGAGTTTAATTGCATGTTTCATGATTGCAACATTCTACCAATATTTGGAAAATATTCGGATTCGGTTGAAGTTTTTCTCTGGTGAGGGGAGGACGCAGTCGCCGGTGCCGGAGATTCGGACTCCTCTTCTTGGGTTGAATAAGGTTTCGAGGAACAAGGTTGTTGAATCGGTTTTATTTGGTGTGAATTCTGCTATTGGGTATTTGTTGATGTTGGCTATAATGTCGTTTAATGGTGGTGTTTTTGTGGCTATTGTGGTTGGTTTAACGTTTGGTTACTTCTTGTTTAGGAGTCAGAGTGAAGAAGAGGCTGCGGTTGTTGTTGATAATTCCTGTGCATGTGCTTAG

Protein sequence

>MS.gene058433.t1

MMHMTLYWGKNVTLLFDSWKTNSWTSYLLSLIACFMIATFYQYLENIRIRLKFFSGEGRTQSPVPEIRTPLLGLNKVSRNKVVESVLFGVNSAIGYLLMLAIMSFNGGVFVAIVVGLTFGYFLFRSQSEEEAAVVVDNSCACA