AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG025292

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025292 MtrunA17_Chr5g0399881 86.413 184 14 3 1 184 1 173 4.97e-111 313
MsaG025292 MtrunA17_Chr5g0399861 84.530 181 21 3 1 181 1 174 2.03e-108 307
MsaG025292 MtrunA17_Chr5g0399851 70.748 147 28 5 29 168 6 144 1.08e-64 195
MsaG025292 MtrunA17_Chr2g0301131 47.273 165 43 7 25 163 99 245 6.92e-35 123
MsaG025292 MtrunA17_Chr2g0302041 30.172 116 72 1 40 146 54 169 4.24e-13 64.7
MsaG025292 MtrunA17_Chr8g0344481 31.298 131 84 3 19 144 79 208 5.22e-13 65.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025292 AT1G19180.2 43.284 134 70 4 37 166 53 184 1.38e-27 102
MsaG025292 AT1G19180.1 43.284 134 70 4 37 166 119 250 1.01e-26 102
MsaG025292 AT1G19180.3 43.284 134 70 4 37 166 119 250 1.01e-26 102
MsaG025292 AT1G74950.1 39.130 138 72 3 37 164 112 247 1.71e-22 91.3
MsaG025292 AT1G74950.2 40.000 110 56 2 37 136 112 221 3.48e-17 76.6
MsaG025292 AT1G17380.2 35.714 126 73 2 33 150 58 183 9.43e-16 73.2
MsaG025292 AT1G72450.1 36.066 122 66 3 39 152 101 218 1.56e-15 72.8
MsaG025292 AT1G17380.1 35.714 126 73 2 33 150 87 212 2.82e-15 72.0
MsaG025292 AT5G20900.1 37.719 114 58 3 44 147 57 167 7.57e-15 69.7
MsaG025292 AT1G70700.2 36.538 104 62 2 44 144 119 221 2.06e-12 63.9
MsaG025292 AT1G17380.3 33.929 112 66 2 33 136 87 198 5.39e-11 59.7
MsaG025292 AT4G14720.1 33.121 157 85 7 40 181 153 304 6.90e-11 60.1
MsaG025292 AT4G14720.2 33.121 157 85 7 40 181 153 304 7.07e-11 60.5

Find 38 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTACAAGAGATTCCTAATT+TGG 0.066386 5:+6200075 MsaT025292.1:CDS
CCATCTATACCTGTTATTTA+TGG 0.164541 5:+6200478 MsaT025292.1:CDS
ATTCATCAATTGACTTATTT+AGG 0.185988 5:-6201791 None:intergenic
AGCTTCACTTCATCGGTTCT+TGG 0.292747 5:+6200622 MsaT025292.1:CDS
TACCTGGAGTTTCCCAAATT+AGG 0.318968 5:-6200088 None:intergenic
CCAAATTAGGAATCTCTTGT+AGG 0.328797 5:-6200075 None:intergenic
CTACAAGAGATTCCTAATTT+GGG 0.331956 5:+6200076 MsaT025292.1:CDS
GGAAAAGTCCATGATGTCTT+TGG 0.411671 5:-6200341 None:intergenic
ATGTCTTTGGCTTTATCAGC+TGG 0.417227 5:-6200328 None:intergenic
GCTGGATTACTTGTTTGATA+AGG 0.423471 5:-6201762 None:intergenic
AGTGAAGCTTTCCTAGTCAT+TGG 0.425048 5:-6200608 None:intergenic
GACTTATTTAGGAATGCTGC+TGG 0.431039 5:-6201780 None:intergenic
GTAGTCTTGAAGAGAATTGT+TGG 0.442893 5:-6200446 None:intergenic
CAAATGACAATCTTCTATGA+TGG 0.453411 5:+6200280 MsaT025292.1:CDS
TGAAGTACTAGTAATTCCTT+TGG 0.455465 5:-6200365 None:intergenic
TTCATCGGTTCTTGGAGAAA+AGG 0.463618 5:+6200630 MsaT025292.1:CDS
GGAAGCTGTTGAAAATTCAT+AGG 0.469618 5:-6200043 None:intergenic
CCATAAATAACAGGTATAGA+TGG 0.477854 5:-6200478 None:intergenic
AGTACTAGTAATTCCTTTGG+TGG 0.499055 5:-6200362 None:intergenic
ATCCATGTCATGGCTATCCT+TGG 0.509457 5:+6201812 MsaT025292.1:CDS
AGCAAGCATAGTTGTTATTG+TGG 0.514503 5:-6200399 None:intergenic
TTCCTAATTTGGGAAACTCC+AGG 0.526778 5:+6200086 MsaT025292.1:CDS
CTAGGAAAGCTTCACTTCAT+CGG 0.529148 5:+6200615 MsaT025292.1:CDS
AAATGACAATCTTCTATGAT+GGG 0.538308 5:+6200281 MsaT025292.1:CDS
CTACATTTAGATTTGTGTTG+CGG 0.547996 5:-6201846 None:intergenic
AATGAAGGCTAATATTAAGA+AGG 0.556826 5:+6200240 MsaT025292.1:CDS
ATCTCTTGTAGGAAGAGATG+AGG 0.564072 5:-6200064 None:intergenic
GGCTAATATTAAGAAGGAAG+AGG 0.566182 5:+6200246 MsaT025292.1:CDS
TCTTGGAGAAAAGGAAGGAT+AGG 0.567398 5:+6200639 MsaT025292.1:CDS
TGATAAAGCCAAAGACATCA+TGG 0.585378 5:+6200333 MsaT025292.1:CDS
TCGGTTCTTGGAGAAAAGGA+AGG 0.585705 5:+6200634 MsaT025292.1:CDS
GTTTCTGCAGAATTGCTGCA+AGG 0.606526 5:+6201736 MsaT025292.1:intron
TTTCTGCAGAATTGCTGCAA+GGG 0.611240 5:+6201737 MsaT025292.1:intron
CAATTGATGAATCCATGTCA+TGG 0.612586 5:+6201802 MsaT025292.1:CDS
TGCCAAGGATAGCCATGACA+TGG 0.617530 5:-6201814 None:intergenic
GATTTGTGTTGCGGTGAATG+TGG 0.627153 5:-6201837 None:intergenic
TTGCGGTGAATGTGGTGCCA+AGG 0.648709 5:-6201829 None:intergenic
ATACAGATTTACCAATGACT+AGG 0.658525 5:+6200597 MsaT025292.1:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 6200022 6201893 6200022 ID=MsaG025292
Chr5 mRNA 6200022 6201893 6200022 ID=MsaT025292.1;Parent=MsaG025292
Chr5 exon 6200022 6200107 6200022 ID=MsaT025292.1.exon1;Parent=MsaT025292.1
Chr5 CDS 6200022 6200107 6200022 ID=cds.MsaT025292.1;Parent=MsaT025292.1
Chr5 exon 6200237 6200499 6200237 ID=MsaT025292.1.exon2;Parent=MsaT025292.1
Chr5 CDS 6200237 6200499 6200237 ID=cds.MsaT025292.1;Parent=MsaT025292.1
Chr5 exon 6200603 6200660 6200603 ID=MsaT025292.1.exon3;Parent=MsaT025292.1
Chr5 CDS 6200603 6200660 6200603 ID=cds.MsaT025292.1;Parent=MsaT025292.1
Chr5 exon 6201746 6201893 6201746 ID=MsaT025292.1.exon4;Parent=MsaT025292.1
Chr5 CDS 6201746 6201893 6201746 ID=cds.MsaT025292.1;Parent=MsaT025292.1
Gene Sequence

>MsaT025292.1

ATGAAGCATCACAACATAACACCTATGAATTTTCAACAGCTTCCTCATCTCTTCCTACAAGAGATTCCTAATTTGGGAAACTCCAGTGCAATGAAGGCTAATATTAAGAAGGAAGAGGCTAGATGTGCACAAATGACAATCTTCTATGATGGGAAAGTAATTGTGTTTGATGATGTTCCAGCTGATAAAGCCAAAGACATCATGGACTTTTCCACCAAAGGAATTACTAGTACTTCACAAGCACAAAACCACAATAACAACTATGCTTGCTCTTCATTTCTTGCTAGAAATTCTGCCAACAATTCTCTTCAAGACTACTATCAAGTACCATCTATACCTGTTATTTATGATTTACCAATGACTAGGAAAGCTTCACTTCATCGGTTCTTGGAGAAAAGGAAGGATAGAATTGCTGCAAGGGCACCTTATCAAACAAGTAATCCAGCAGCATTCCTAAATAAGTCAATTGATGAATCCATGTCATGGCTATCCTTGGCACCACATTCACCGCAACACAAATCTAAATGTAGCTCCACCTCTGTGTTATTTTTGTAG
Protein sequence

>MsaT025292.1

MKHHNITPMNFQQLPHLFLQEIPNLGNSSAMKANIKKEEARCAQMTIFYDGKVIVFDDVPADKAKDIMDFSTKGITSTSQAQNHNNNYACSSFLARNSANNSLQDYYQVPSIPVIYDLPMTRKASLHRFLEKRKDRIAARAPYQTSNPAAFLNKSIDESMSWLSLAPHSPQHKSKCSSTSVLFL*