AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG024841

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024841 MtrunA17_Chr5g0394621 93.684 190 12 0 1 190 1 190 2.48e-129 361
MsaG024841 MtrunA17_Chr5g0394631 77.222 180 41 0 1 180 1 180 2.36e-96 285
MsaG024841 MtrunA17_Chr5g0394631 73.196 194 42 5 1 190 214 401 1.49e-89 268
MsaG024841 MtrunA17_Chr1g0204951 64.583 192 64 2 1 190 1 190 1.73e-85 250
MsaG024841 MtrunA17_Chr1g0204971 60.417 192 72 2 1 190 1 190 1.87e-79 234
MsaG024841 MtrunA17_Chr7g0273661 40.764 157 90 1 16 172 3 156 1.14e-41 137
MsaG024841 MtrunA17_Chr7g0223361 39.181 171 100 2 17 187 4 170 9.29e-37 125
MsaG024841 MtrunA17_Chr7g0223351 39.286 168 97 3 20 187 7 169 3.16e-35 122
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024841 AT2G32030.1 51.786 168 74 3 21 187 24 185 1.66e-58 182
MsaG024841 AT2G32020.1 51.190 168 75 2 21 187 19 180 2.46e-54 171
MsaG024841 AT3G22560.1 38.235 170 100 2 20 187 6 172 2.52e-35 122

Find 49 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAAATCAATTCTCTCTTCTT+TGG 0.250774 5:+1380570 None:intergenic
ATGTTCTAGGCTCTAAATAT+TGG 0.292142 5:-1380288 MsaT024841.1:CDS
TCCTTAGAACTCCCTCCTTT+TGG 0.297796 5:+1380128 None:intergenic
GCAGAACTTGGCTATGTTCT+AGG 0.302641 5:-1380301 MsaT024841.1:CDS
TGTTCTAGGCTCTAAATATT+GGG 0.316974 5:-1380287 MsaT024841.1:CDS
GAGTTCCCAAGAGCAGAATT+TGG 0.329740 5:+1380471 None:intergenic
GAAGGGCTCGAAGTGTGATT+TGG 0.338927 5:+1380545 None:intergenic
GCTCTAAATATTGGGGTAAA+GGG 0.356917 5:-1380279 MsaT024841.1:CDS
AAGTTCTGCACATTTGTTCC+TGG 0.375848 5:+1380315 None:intergenic
CTAAACAATTGAATTATAGT+TGG 0.392086 5:+1380041 None:intergenic
ATATAGCTACCAAGTTTCTA+TGG 0.402105 5:-1380411 MsaT024841.1:CDS
TGCATCAATGATCGTGCAAT+TGG 0.403589 5:-1380376 MsaT024841.1:CDS
AAGGGCTCGAAGTGTGATTT+GGG 0.403990 5:+1380546 None:intergenic
TCCAAAAGGAGGGAGTTCTA+AGG 0.410439 5:-1380129 MsaT024841.1:CDS
GGCTCTAAATATTGGGGTAA+AGG 0.422886 5:-1380280 MsaT024841.1:CDS
AAGTGGCCAAATTCTGCTCT+TGG 0.423997 5:-1380477 MsaT024841.1:CDS
GTTGATGCCATCATCCTTGC+TGG 0.429573 5:+1380444 None:intergenic
TGCTGGGTCTCAAAGAGTGC+TGG 0.460731 5:-1380164 MsaT024841.1:CDS
AGTGGCCAAATTCTGCTCTT+GGG 0.474265 5:-1380476 MsaT024841.1:CDS
AGGAACAAATGTGCAGAACT+TGG 0.475881 5:-1380313 MsaT024841.1:CDS
AGGAAATATTTGTTCATGAA+AGG 0.480337 5:-1380109 MsaT024841.1:CDS
GCTTGAAGCTTTAGTTGATG+TGG 0.488968 5:-1380191 MsaT024841.1:CDS
TGCTTTGCACCATAGAAACT+TGG 0.496119 5:+1380402 None:intergenic
TTCTGACCTTGATGATCTCA+TGG 0.505164 5:-1380518 MsaT024841.1:CDS
CATCAAGGTCAGAAAGTTGA+AGG 0.505953 5:+1380527 None:intergenic
TGTTGTGAAACAAGTTGTTA+AGG 0.509712 5:-1380245 MsaT024841.1:CDS
TTGTTCCTGGATTTATCACC+AGG 0.514781 5:+1380328 None:intergenic
ATTCTGTGAGTTGACTTACT+TGG 0.516104 5:-1380218 MsaT024841.1:CDS
CAAAGAGTGCTGGAGAAAGC+TGG 0.517457 5:-1380154 MsaT024841.1:CDS
TTAGTTGATGTGGAAAATGC+TGG 0.527178 5:-1380181 MsaT024841.1:CDS
GTGAGTTGACTTACTTGGAA+AGG 0.541309 5:-1380213 MsaT024841.1:CDS
GTTCACCTGGTGATAAATCC+AGG 0.542743 5:-1380333 MsaT024841.1:CDS
TCTCTATCCTCAAGTTCACC+TGG 0.545696 5:-1380346 MsaT024841.1:CDS
CTCTACACCAGCAAGGATGA+TGG 0.559987 5:-1380451 MsaT024841.1:CDS
GAAAGCTGGTTTCCAAAAGG+AGG 0.562242 5:-1380140 MsaT024841.1:CDS
CTCTAAATATTGGGGTAAAG+GGG 0.564900 5:-1380278 MsaT024841.1:CDS
GCATCAATGATCGTGCAATT+GGG 0.567462 5:-1380375 MsaT024841.1:CDS
GGAGAAAGCTGGTTTCCAAA+AGG 0.570344 5:-1380143 MsaT024841.1:CDS
TTTATCACCAGGTGAACTTG+AGG 0.573291 5:+1380339 None:intergenic
TAGTTGATGTGGAAAATGCT+GGG 0.573363 5:-1380180 MsaT024841.1:CDS
ATTCTCTCTTCTTTGGCACG+TGG 0.591899 5:+1380577 None:intergenic
ACCTTGATGATCTCATGGTG+TGG 0.606125 5:-1380513 MsaT024841.1:CDS
AACTTGTTTCACAACACATG+TGG 0.607173 5:+1380252 None:intergenic
GTTCTAGGCTCTAAATATTG+GGG 0.619040 5:-1380286 MsaT024841.1:CDS
TCCACACCATGAGATCATCA+AGG 0.646997 5:+1380512 None:intergenic
ATCAAGGTCAGAAAGTTGAA+GGG 0.653293 5:+1380528 None:intergenic
AAAGCTGGTTTCCAAAAGGA+GGG 0.657724 5:-1380139 MsaT024841.1:CDS
GAGATCAGTAGAAAGAACAC+TGG 0.658551 5:+1380063 None:intergenic
TTGGGAACTCTACACCAGCA+AGG 0.679749 5:-1380458 MsaT024841.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 1380054 1380626 1380054 ID=MsaG024841
Chr5 mRNA 1380054 1380626 1380054 ID=MsaT024841.1;Parent=MsaG024841
Chr5 exon 1380054 1380626 1380054 ID=MsaT024841.1.exon1;Parent=MsaT024841.1
Chr5 CDS 1380054 1380626 1380054 ID=cds.MsaT024841.1;Parent=MsaT024841.1
Gene Sequence

>MsaT024841.1

ATGGAGAGAACTTCTATTTCTTTCGAACCACGTGCCAAAGAAGAGAGAATTGATTTAACCCAAATCACACTTCGAGCCCTTCAACTTTCTGACCTTGATGATCTCATGGTGTGGACAACTGATGAAAAAGTGGCCAAATTCTGCTCTTGGGAACTCTACACCAGCAAGGATGATGGCATCAACTTCATTGAAAATATAGCTACCAAGTTTCTATGGTGCAAAGCAATATGCATCAATGATCGTGCAATTGGGTGTGTTTCTCTATCCTCAAGTTCACCTGGTGATAAATCCAGGAACAAATGTGCAGAACTTGGCTATGTTCTAGGCTCTAAATATTGGGGTAAAGGGGTTGCCACATGTGTTGTGAAACAAGTTGTTAAGGTTGCATTCTGTGAGTTGACTTACTTGGAAAGGCTTGAAGCTTTAGTTGATGTGGAAAATGCTGGGTCTCAAAGAGTGCTGGAGAAAGCTGGTTTCCAAAAGGAGGGAGTTCTAAGGAAATATTTGTTCATGAAAGGAAAAAGTAGAGATATGATCATGTCCAGTGTTCTTTCTACTGATCTCCAACTATAA
Protein sequence

>MsaT024841.1

MERTSISFEPRAKEERIDLTQITLRALQLSDLDDLMVWTTDEKVAKFCSWELYTSKDDGINFIENIATKFLWCKAICINDRAIGCVSLSSSSPGDKSRNKCAELGYVLGSKYWGKGVATCVVKQVVKVAFCELTYLERLEALVDVENAGSQRVLEKAGFQKEGVLRKYLFMKGKSRDMIMSSVLSTDLQL*