AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1447170


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1447170 MtrunA17_Chr1g0198251 100.000 137 0 0 1 137 1 137 1.82e-95 271
Msa1447170 MtrunA17_Chr1g0197451 99.270 137 1 0 1 137 1 137 9.85e-95 269
Msa1447170 MtrunA17_Chr4g0030981 86.395 147 10 3 1 137 1 147 5.60e-81 234
Msa1447170 MtrunA17_Chr4g0031671 87.162 148 8 3 1 137 1 148 2.81e-77 225
Msa1447170 MtrunA17_Chr4g0031631 87.162 148 8 3 1 137 1 148 2.81e-77 225
Msa1447170 MtrunA17_Chr4g0030941 87.162 148 8 3 1 137 1 148 2.81e-77 225
Msa1447170 MtrunA17_Chr4g0031061 86.486 148 9 3 1 137 1 148 1.76e-76 223
Msa1447170 MtrunA17_Chr4g0032321 86.486 148 9 3 1 137 1 148 1.76e-76 223
Msa1447170 MtrunA17_Chr4g0035061 87.162 148 8 3 1 137 1 148 2.47e-76 223
Msa1447170 MtrunA17_Chr4g0035631 87.162 148 8 3 1 137 1 148 2.47e-76 223
Msa1447170 MtrunA17_Chr4g0046191 89.510 143 9 3 1 137 1 143 5.03e-76 222
Msa1447170 MtrunA17_Chr4g0035071 85.811 148 10 3 1 137 1 148 1.15e-74 219
Msa1447170 MtrunA17_Chr4g0030951 86.806 144 8 3 5 137 4 147 2.88e-74 218
Msa1447170 MtrunA17_Chr7g0263031 95.413 109 4 1 29 137 31 138 1.99e-64 192
Msa1447170 MtrunA17_Chr1g0182361 93.578 109 5 1 29 137 30 136 2.35e-63 189
Msa1447170 MtrunA17_Chr2g0320511 61.798 89 34 0 48 136 136 224 1.46e-37 127
Msa1447170 MtrunA17_Chr8g0368781 69.663 89 24 1 8 96 3 88 6.06e-37 121
Msa1447170 MtrunA17_Chr4g0031051 90.196 51 5 0 75 125 1 51 4.12e-27 95.5
Msa1447170 MtrunA17_Chr7g0228831 87.273 55 6 1 32 85 27 81 2.03e-24 90.1
Msa1447170 MtrunA17_Chr4g0014401 36.364 99 58 1 28 121 12 110 3.03e-13 62.4
Msa1447170 MtrunA17_Chr4g0075141 37.349 83 51 1 53 134 34 116 3.32e-12 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1447170 AT2G37470.1 88.406 138 14 2 1 136 1 138 5.10e-75 219
Msa1447170 AT3G45980.1 83.333 150 12 3 1 137 1 150 2.71e-74 218
Msa1447170 AT2G28720.1 82.119 151 13 2 1 137 1 151 4.34e-74 218
Msa1447170 AT3G53650.1 86.331 139 16 3 1 137 1 138 1.61e-71 211
Msa1447170 AT1G07790.1 83.333 150 10 4 1 137 1 148 1.97e-71 211
Msa1447170 AT5G59910.1 87.313 134 15 2 6 137 17 150 6.78e-70 207
Msa1447170 AT3G46030.1 89.147 129 12 2 11 137 17 145 2.34e-69 206
Msa1447170 AT5G22880.1 80.282 142 14 2 10 137 4 145 2.02e-66 198
Msa1447170 AT5G02570.1 84.173 139 13 2 1 137 1 132 3.08e-66 197
Msa1447170 AT3G09480.1 79.562 137 17 2 1 137 1 126 2.08e-62 187
Msa1447170 AT1G08170.1 56.989 93 40 0 42 134 143 235 7.06e-38 129

Find 31 sgRNAs with CRISPR-Local

Find 29 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATTCAAGAGCTAGTGAATT+TGG 0.219657 tig0031610:+3177 None:intergenic
GCTGTTCGTCTTGTTCTTCC+TGG 0.277831 tig0031610:-3244 Msa1447170:CDS
CTTGAAGATGTAGATCTTGT+AGG 0.279657 tig0031610:+3426 None:intergenic
TCAGTTGAGGATGCTTCCTT+TGG 0.300529 tig0031610:+3484 None:intergenic
GCGGGTTTCTTCTCTCCCTT+TGG 0.352007 tig0031610:+3565 None:intergenic
TCAGCTGGTGCCTTCTCTGC+AGG 0.357925 tig0031610:+3532 None:intergenic
CGGTATCTCAAGCAAGGCTA+TGG 0.396652 tig0031610:-3377 Msa1447170:CDS
CTTGTTGTAGCGAGCAAGTC+TGG 0.401541 tig0031610:+3300 None:intergenic
CAGTTGAGGATGCTTCCTTT+GGG 0.416445 tig0031610:+3485 None:intergenic
AGTGAATTTGGTGACAGCTT+TGG 0.420989 tig0031610:+3189 None:intergenic
CTACAAGATCTACATCTTCA+AGG 0.431521 tig0031610:-3425 Msa1447170:CDS
CTTCTTCTTCTTATCAGTTG+AGG 0.448679 tig0031610:+3471 None:intergenic
CATCTTCAAGGTTCTCAAGC+AGG 0.470454 tig0031610:-3413 Msa1447170:CDS
TCTGCAGGCTTCTTCTCTGC+GGG 0.470993 tig0031610:+3547 None:intergenic
AGAGAAGAAGCCTGCAGAGA+AGG 0.499836 tig0031610:-3542 Msa1447170:CDS
CTCTGCAGGCTTCTTCTCTG+CGG 0.503353 tig0031610:+3546 None:intergenic
GGTGACAGCTTTGGTTCCCT+CGG 0.503972 tig0031610:+3198 None:intergenic
TCAATCAACAATGGCACCAA+AGG 0.515027 tig0031610:-3581 None:intergenic
GCGTGCTTAGCGAGTTCACC+AGG 0.523823 tig0031610:+3226 None:intergenic
GGTATCTCAAGCAAGGCTAT+GGG 0.525343 tig0031610:-3376 Msa1447170:CDS
TTGCTTGAGATACCGATGTC+AGG 0.547522 tig0031610:+3385 None:intergenic
CAATCAACAATGGCACCAAA+GGG 0.556792 tig0031610:-3580 None:intergenic
CTGAATCTCACGAGAAGTGA+TGG 0.558881 tig0031610:+3270 None:intergenic
TATCTTTGAGAAGCTCGCTC+AGG 0.560608 tig0031610:-3329 Msa1447170:CDS
CGCTAAGCACGCTGTCTCCG+AGG 0.575955 tig0031610:-3215 Msa1447170:CDS
GCTAAGCACGCTGTCTCCGA+GGG 0.605983 tig0031610:-3214 Msa1447170:CDS
TGACATCGGTATCTCAAGCA+AGG 0.623015 tig0031610:-3383 Msa1447170:CDS
AAGCAGGTTCATCCTGACAT+CGG 0.661631 tig0031610:-3397 Msa1447170:CDS
AGCAGAGAAGAAGATCCCAA+AGG 0.665852 tig0031610:-3500 Msa1447170:CDS
GTATCTCAAGCAAGGCTATG+GGG 0.674185 tig0031610:-3375 Msa1447170:CDS
ATCTCACGAGAAGTGATGGT+AGG 0.676602 tig0031610:+3274 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
CTTCTTCTTCTTATCAGTTG+AGG + tig0031610:3283-3302 None:intergenic 35.0%
CTTGAAGATGTAGATCTTGT+AGG + tig0031610:3328-3347 None:intergenic 35.0%
CTACAAGATCTACATCTTCA+AGG - tig0031610:3326-3345 Msa1447170:CDS 35.0%
! AGTGAATTTGGTGACAGCTT+TGG + tig0031610:3565-3584 None:intergenic 40.0%
! TCTGCTTTCGTTTTCTCAGC+TGG + tig0031610:3237-3256 None:intergenic 45.0%
AGCAGAGAAGAAGATCCCAA+AGG - tig0031610:3251-3270 Msa1447170:CDS 45.0%
CAGTTGAGGATGCTTCCTTT+GGG + tig0031610:3269-3288 None:intergenic 45.0%
TCAGTTGAGGATGCTTCCTT+TGG + tig0031610:3270-3289 None:intergenic 45.0%
CATCTTCAAGGTTCTCAAGC+AGG - tig0031610:3338-3357 Msa1447170:CDS 45.0%
AAGCAGGTTCATCCTGACAT+CGG - tig0031610:3354-3373 Msa1447170:CDS 45.0%
TTGCTTGAGATACCGATGTC+AGG + tig0031610:3369-3388 None:intergenic 45.0%
TGACATCGGTATCTCAAGCA+AGG - tig0031610:3368-3387 Msa1447170:CDS 45.0%
GGTATCTCAAGCAAGGCTAT+GGG - tig0031610:3375-3394 Msa1447170:CDS 45.0%
GTATCTCAAGCAAGGCTATG+GGG - tig0031610:3376-3395 Msa1447170:CDS 45.0%
! TATCTTTGAGAAGCTCGCTC+AGG - tig0031610:3422-3441 Msa1447170:CDS 45.0%
ATCTCACGAGAAGTGATGGT+AGG + tig0031610:3480-3499 None:intergenic 45.0%
CTGAATCTCACGAGAAGTGA+TGG + tig0031610:3484-3503 None:intergenic 45.0%
AGAGAAGAAGCCTGCAGAGA+AGG - tig0031610:3209-3228 Msa1447170:CDS 50.0%
CGGTATCTCAAGCAAGGCTA+TGG - tig0031610:3374-3393 Msa1447170:CDS 50.0%
! CTTGTTGTAGCGAGCAAGTC+TGG + tig0031610:3454-3473 None:intergenic 50.0%
! GCTGTTCGTCTTGTTCTTCC+TGG - tig0031610:3507-3526 Msa1447170:CDS 50.0%
GCGGGTTTCTTCTCTCCCTT+TGG + tig0031610:3189-3208 None:intergenic 55.0%
TCTGCAGGCTTCTTCTCTGC+GGG + tig0031610:3207-3226 None:intergenic 55.0%
CTCTGCAGGCTTCTTCTCTG+CGG + tig0031610:3208-3227 None:intergenic 55.0%
! GGTGACAGCTTTGGTTCCCT+CGG + tig0031610:3556-3575 None:intergenic 55.0%
TCAGCTGGTGCCTTCTCTGC+AGG + tig0031610:3222-3241 None:intergenic 60.0%
GCGTGCTTAGCGAGTTCACC+AGG + tig0031610:3528-3547 None:intergenic 60.0%
GCTAAGCACGCTGTCTCCGA+GGG - tig0031610:3537-3556 Msa1447170:CDS 60.0%
CGCTAAGCACGCTGTCTCCG+AGG - tig0031610:3536-3555 Msa1447170:CDS 65.0%
Chromosome Type Strat End Strand Name
tig0031610 gene 3180 3593 3180 ID=Msa1447170;Name=Msa1447170
tig0031610 mRNA 3180 3593 3180 ID=Msa1447170-mRNA-1;Parent=Msa1447170;Name=Msa1447170-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|137
tig0031610 exon 3180 3593 3180 ID=Msa1447170-mRNA-1:exon:15788;Parent=Msa1447170-mRNA-1
tig0031610 CDS 3180 3593 3180 ID=Msa1447170-mRNA-1:cds;Parent=Msa1447170-mRNA-1
Gene Sequence

>Msa1447170

ATGGCACCAAAGGGAGAGAAGAAACCCGCAGAGAAGAAGCCTGCAGAGAAGGCACCAGCTGAGAAAACGAAAGCAGAGAAGAAGATCCCAAAGGAAGCATCCTCAACTGATAAGAAGAAGAAGAGAAACAAGAAGAGCGTTGAAACCTACAAGATCTACATCTTCAAGGTTCTCAAGCAGGTTCATCCTGACATCGGTATCTCAAGCAAGGCTATGGGGATCATGAACAGCTTCATCAATGATATCTTTGAGAAGCTCGCTCAGGAATCTTCCAGACTTGCTCGCTACAACAAGAAACCTACCATCACTTCTCGTGAGATTCAGACTGCTGTTCGTCTTGTTCTTCCTGGTGAACTCGCTAAGCACGCTGTCTCCGAGGGAACCAAAGCTGTCACCAAATTCACTAGCTCTTGA

Protein sequence

>Msa1447170

MAPKGEKKPAEKKPAEKAPAEKTKAEKKIPKEASSTDKKKKRNKKSVETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLAQESSRLARYNKKPTITSREIQTAVRLVLPGELAKHAVSEGTKAVTKFTSS*