AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG027317

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027317 MtrunA17_Chr1g0203051 62.602 123 43 1 3 122 92 214 1.56e-51 172
MsaG027317 MtrunA17_Chr8g0389811 43.564 101 54 1 1 98 95 195 5.79e-28 102
MsaG027317 MtrunA17_Chr1g0171741 38.655 119 71 1 1 117 144 262 7.19e-25 95.1
MsaG027317 MtrunA17_Chr2g0331371 41.414 99 55 1 3 98 68 166 6.14e-19 78.6
MsaG027317 MtrunA17_Chr2g0287651 33.058 121 78 1 3 120 88 208 4.18e-18 79.0
MsaG027317 MtrunA17_Chr1g0198761 34.091 132 74 5 3 122 60 190 1.13e-15 72.0
MsaG027317 MtrunA17_Chr6g0473421 42.857 63 33 1 3 62 68 130 8.87e-14 63.9
MsaG027317 MtrunA17_Chr2g0290391 30.081 123 80 3 3 120 64 185 2.40e-13 65.5
MsaG027317 MtrunA17_Chr1g0172931 43.056 72 38 1 1 69 87 158 3.12e-12 60.1
MsaG027317 MtrunA17_Chr2g0276841 32.283 127 78 4 3 122 83 208 5.08e-12 61.6
MsaG027317 MtrunA17_Chr6g0458391 29.524 105 72 2 3 106 104 207 2.96e-11 59.3
MsaG027317 MtrunA17_Chr5g0431001 26.718 131 85 2 3 122 74 204 4.46e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027317 AT5G28530.4 30.894 123 79 3 3 120 68 189 6.13e-16 73.2
MsaG027317 AT5G28530.5 30.894 123 79 3 3 120 68 189 6.49e-16 73.2
MsaG027317 AT5G28530.1 30.894 123 79 3 3 120 68 189 7.17e-16 73.2
MsaG027317 AT5G28530.3 30.894 123 79 3 3 120 68 189 7.37e-16 72.8
MsaG027317 AT5G28530.2 30.894 123 79 3 3 120 68 189 7.37e-16 72.8
MsaG027317 AT1G10240.2 31.250 128 78 5 3 122 61 186 2.53e-12 62.8
MsaG027317 AT1G10240.1 31.250 128 78 5 3 122 61 186 2.53e-12 62.8
MsaG027317 AT3G59470.3 29.231 130 83 4 5 127 85 212 5.68e-11 58.2
MsaG027317 AT3G59470.1 29.231 130 83 4 5 127 85 212 5.68e-11 58.2
MsaG027317 AT3G59470.2 29.231 130 83 4 5 127 97 224 6.62e-11 58.2

Find 22 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCATACTTCCCATCCAAAA+AGG 0.325439 5:+42176161 None:intergenic
AATTTGTACGGTTGTGTACA+TGG 0.412632 5:-42176408 MsaT027317.1:CDS
AACTAGTAGGTATGGTTGTA+TGG 0.442186 5:-42176259 MsaT027317.1:CDS
GGTTGTGTACATGGATTTGC+TGG 0.462635 5:-42176399 MsaT027317.1:CDS
TATGTCATAGAGAAGGTCTC+AGG 0.491914 5:-42176320 MsaT027317.1:CDS
TCGCTCATCTTCCTATGTGC+AGG 0.516343 5:+42176129 None:intergenic
ATGAAAACAATGAGGAAAGC+GGG 0.526992 5:-42176090 MsaT027317.1:CDS
CACAAGCCAACTAGTAGGTA+TGG 0.531207 5:-42176267 MsaT027317.1:CDS
AAGAGCACAAGCCAACTAGT+AGG 0.535267 5:-42176272 MsaT027317.1:CDS
CATCCTTGTTCTTCACAACA+CGG 0.545229 5:+42176367 None:intergenic
ATACAACCATACCTACTAGT+TGG 0.551850 5:+42176261 None:intergenic
GTACACGTTGACGCTGGTAG+CGG 0.591900 5:-42176225 MsaT027317.1:CDS
TTGACGCTGGTAGCGGTCGA+TGG 0.592302 5:-42176218 MsaT027317.1:CDS
ACCTTCTCTATGACATACAA+AGG 0.616248 5:+42176326 None:intergenic
ACCTTTGTATGTCATAGAGA+AGG 0.618948 5:-42176327 MsaT027317.1:CDS
AAATCATAGATGCGTGACGT+AGG 0.621577 5:+42176062 None:intergenic
AATGAAAACAATGAGGAAAG+CGG 0.645094 5:-42176091 MsaT027317.1:CDS
ATGTCATAGAGAAGGTCTCA+GGG 0.647790 5:-42176319 MsaT027317.1:CDS
GGGTTGCAAGTAATGCCGAT+AGG 0.657562 5:-42176299 MsaT027317.1:CDS
ATTCAAGTACACGTTGACGC+TGG 0.666323 5:-42176231 MsaT027317.1:CDS
AATACCAAATGAAAACAATG+AGG 0.675624 5:-42176098 MsaT027317.1:CDS
AAGCCGTGTTGTGAAGAACA+AGG 0.686657 5:-42176370 MsaT027317.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 42176065 42176611 42176065 ID=MsaG027317
Chr5 mRNA 42176065 42176611 42176065 ID=MsaT027317.1;Parent=MsaG027317
Chr5 exon 42176065 42176443 42176065 ID=MsaT027317.1.exon2;Parent=MsaT027317.1
Chr5 CDS 42176065 42176443 42176065 ID=cds.MsaT027317.1;Parent=MsaT027317.1
Chr5 exon 42176607 42176611 42176607 ID=MsaT027317.1.exon1;Parent=MsaT027317.1
Chr5 CDS 42176607 42176611 42176607 ID=cds.MsaT027317.1;Parent=MsaT027317.1
Gene Sequence

>MsaT027317.1

ATGATATTCAAGTTTTACAATTTGTACGGTTGTGTACATGGATTTGCTGGTAGAAGAAGCCGTGTTGTGAAGAACAAGGATGACGATGTTGTTCAACAAACCTTTGTATGTCATAGAGAAGGTCTCAGGGTTGCAAGTAATGCCGATAGGAAAAAAGAGCACAAGCCAACTAGTAGGTATGGTTGTATGGCAAAAATTCAAGTACACGTTGACGCTGGTAGCGGTCGATGGTACATAAAATTGTTTGACGATATTCACAATCATACCTTTTTGGATGGGAAGTATGAGGGAATTTTACCTGCACATAGGAAGATGAGCGATTATGACAAATACCAAATGAAAACAATGAGGAAAGCGGGCAATTCCTACGTCACGCATCTATGA
Protein sequence

>MsaT027317.1

MIFKFYNLYGCVHGFAGRRSRVVKNKDDDVVQQTFVCHREGLRVASNADRKKEHKPTSRYGCMAKIQVHVDAGSGRWYIKLFDDIHNHTFLDGKYEGILPAHRKMSDYDKYQMKTMRKAGNSYVTHL*