AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG044330


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG044330 MtrunA17_Chr8g0373231 87.552 241 21 3 1 235 1 238 1.37e-129 365
MsaG044330 MtrunA17_Chr5g0404131 55.285 246 78 11 1 225 71 305 4.35e-70 217
MsaG044330 MtrunA17_Chr1g0151461 59.322 59 21 2 115 173 179 234 1.26e-13 68.9
MsaG044330 MtrunA17_Chr7g0271861 50.847 59 19 1 122 170 19 77 1.87e-13 65.1
MsaG044330 MtrunA17_Chr4g0071301 55.385 65 27 2 90 154 159 221 2.11e-13 68.6
MsaG044330 MtrunA17_Chr4g0068031 67.568 37 12 0 125 161 30 66 9.68e-13 63.5
MsaG044330 MtrunA17_Chr2g0326771 30.719 153 89 4 20 157 98 248 1.00e-12 66.2
MsaG044330 MtrunA17_Chr1g0213161 48.148 54 28 0 104 157 131 184 2.65e-12 64.3
MsaG044330 MtrunA17_Chr4g0028961 56.098 41 18 0 117 157 224 264 5.23e-12 64.3
MsaG044330 MtrunA17_Chr1g0199671 56.250 48 15 1 110 157 233 274 1.39e-11 63.2
MsaG044330 MtrunA17_Chr3g0145121 51.111 45 22 0 113 157 203 247 1.58e-11 62.8
MsaG044330 MtrunA17_Chr8g0372291 45.455 55 30 0 103 157 196 250 8.44e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG044330 AT3G50870.1 39.100 289 93 13 20 235 17 295 3.64e-45 153
MsaG044330 AT2G18380.1 49.686 159 65 5 23 179 1 146 3.02e-36 127
MsaG044330 AT4G36620.1 43.333 210 80 7 51 234 14 210 6.32e-35 124
MsaG044330 AT5G56860.1 64.000 50 15 2 111 158 215 263 2.41e-13 68.9
MsaG044330 AT4G26150.1 73.684 38 9 1 118 155 193 229 7.21e-13 67.4
MsaG044330 AT5G26930.1 68.571 35 11 0 127 161 28 62 8.08e-13 63.5
MsaG044330 AT5G49300.1 71.429 35 10 0 127 161 38 72 1.44e-12 63.5
MsaG044330 AT3G06740.1 71.429 35 10 0 127 161 43 77 2.57e-12 63.2
MsaG044330 AT3G54810.1 48.571 70 31 2 110 175 215 283 5.85e-12 64.7
MsaG044330 AT3G54810.2 48.571 70 31 2 110 175 215 283 5.85e-12 64.7
MsaG044330 AT1G08010.2 58.537 41 16 1 117 157 213 252 2.45e-11 62.8
MsaG044330 AT1G08010.1 58.537 41 16 1 117 157 213 252 2.45e-11 62.8
MsaG044330 AT1G08010.3 58.537 41 16 1 117 157 213 252 2.45e-11 62.8
MsaG044330 AT4G32890.1 38.272 81 47 1 80 157 149 229 4.60e-11 62.0
MsaG044330 AT4G34680.1 42.188 64 30 1 94 157 156 212 5.30e-11 61.2
MsaG044330 AT4G34680.2 42.188 64 30 1 94 157 156 212 5.30e-11 61.2
MsaG044330 AT3G20750.1 66.667 33 11 0 130 162 164 196 8.51e-11 60.1
MsaG044330 AT3G60530.1 40.964 83 41 2 80 157 111 190 9.45e-11 60.5

Find 44 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCATTCCAAATTTCCTTTCT+TGG 0.186888 8:-58710841 MsaT044330.1:CDS
AGTCTCCAAGAAAGGAAATT+TGG 0.258564 8:+58710836 None:intergenic
TCAGATGCAGAATCAGAAAA+TGG 0.349796 8:-58710863 MsaT044330.1:CDS
GGAGTAGTAGTGTAAGAGTA+AGG 0.350842 8:+58711621 None:intergenic
TCAAGCAAAGGAAACAATAT+TGG 0.387578 8:-58711447 MsaT044330.1:CDS
TCTACAACAACAACAATTCA+TGG 0.388097 8:-58710940 MsaT044330.1:CDS
AAGCAACGAGTAGTTAGAAT+TGG 0.404782 8:+58711683 None:intergenic
AGCGACGGTTTCGTTTATCT+TGG 0.414787 8:+58711538 None:intergenic
CGCGACTAACAGCGGCATAA+TGG 0.420708 8:-58710975 MsaT044330.1:CDS
AGTCACTATGCAATGCTTGC+GGG 0.430912 8:-58711051 MsaT044330.1:CDS
ACACCACTTCTACACCCCTT+TGG 0.442678 8:-58711374 MsaT044330.1:CDS
TCTCAACAAGGTCACATAAT+GGG 0.447815 8:-58711741 MsaT044330.1:CDS
CTCTCAACAAGGTCACATAA+TGG 0.454874 8:-58711742 MsaT044330.1:CDS
CCACTTCTACACCCCTTTGG+AGG 0.484365 8:-58711371 MsaT044330.1:CDS
ACGAGGACCATTCCTCCAAA+GGG 0.492453 8:+58711359 None:intergenic
TGGCAATGAGCTAAGTTTCA+TGG 0.499631 8:-58710891 MsaT044330.1:CDS
TCTACACCCCTTTGGAGGAA+TGG 0.501186 8:-58711366 MsaT044330.1:CDS
TCTTCAGATAAACGTGTTGA+AGG 0.506795 8:+58711561 None:intergenic
GAGTAGTTAGAATTGGTTTG+AGG 0.511649 8:+58711690 None:intergenic
AACAGCGGCATAATGGAGTC+AGG 0.511807 8:-58710968 MsaT044330.1:CDS
GAGTAGTAGTGTAAGAGTAA+GGG 0.528552 8:+58711622 None:intergenic
TTGTGTTGAGTCTCCAAGAA+AGG 0.529190 8:+58710828 None:intergenic
CTTCAGATAAACGTGTTGAA+GGG 0.533289 8:+58711562 None:intergenic
CAGTCACTATGCAATGCTTG+CGG 0.541543 8:-58711052 MsaT044330.1:CDS
CACGAGGACCATTCCTCCAA+AGG 0.545071 8:+58711358 None:intergenic
TTGCCATACATTTGACTCTG+TGG 0.554705 8:+58710908 None:intergenic
GCTGTTAGTCGCGGCTGTAG+TGG 0.556331 8:+58710985 None:intergenic
GTGCAATCAACAGAAGAAGA+TGG 0.561538 8:+58711600 None:intergenic
CAACCACAGAGTCAAATGTA+TGG 0.561677 8:-58710911 MsaT044330.1:CDS
CCTCCAAAGGGGTGTAGAAG+TGG 0.563224 8:+58711371 None:intergenic
TTCAGATAAACGTGTTGAAG+GGG 0.588418 8:+58711563 None:intergenic
GAATGGTCCTCGTGGCCCAA+AGG 0.595177 8:-58711349 MsaT044330.1:intron
CGCGGCTGTAGTGGCAACCG+CGG 0.597888 8:+58710994 None:intergenic
ACTACAGCCGCGACTAACAG+CGG 0.603703 8:-58710983 MsaT044330.1:CDS
TCTCAATCTAAGTCAAGCAA+AGG 0.604127 8:-58711459 MsaT044330.1:CDS
AATTAGCAAGAGAGGAGCGA+CGG 0.624431 8:+58711523 None:intergenic
ATGGGAGGAACATGCACATG+TGG 0.624656 8:-58711723 MsaT044330.1:CDS
TTGCGGGATTAGATACAAGA+AGG 0.629096 8:-58711035 MsaT044330.1:CDS
AGAGAGAAGAGCGAACGCCG+CGG 0.661922 8:-58711011 MsaT044330.1:CDS
CATTATGCCGCTGTTAGTCG+CGG 0.663535 8:+58710976 None:intergenic
CTTTGGAGGAATGGTCCTCG+TGG 0.675633 8:-58711357 MsaT044330.1:CDS
CAACAAGGTCACATAATGGG+AGG 0.680593 8:-58711738 MsaT044330.1:CDS
CGAGGACCATTCCTCCAAAG+GGG 0.705344 8:+58711360 None:intergenic
TGTTGTAGTAGCTCTCAACA+AGG 0.711133 8:-58711753 MsaT044330.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 58710802 58711787 58710802 ID=MsaG044330
Chr8 mRNA 58710802 58711787 58710802 ID=MsaT044330.1;Parent=MsaG044330
Chr8 exon 58710802 58711071 58710802 ID=MsaT044330.1.exon2;Parent=MsaT044330.1
Chr8 CDS 58710802 58711071 58710802 ID=cds.MsaT044330.1;Parent=MsaT044330.1
Chr8 exon 58711350 58711787 58711350 ID=MsaT044330.1.exon1;Parent=MsaT044330.1
Chr8 CDS 58711350 58711787 58711350 ID=cds.MsaT044330.1;Parent=MsaT044330.1
Gene Sequence

>MsaT044330.1

ATGATGCATCATTGTTGTAGTAGCTCTCAACAAGGTCACATAATGGGAGGAACATGCACATGTGGTATGTTTCATCCTCAAACCAATTCTAACTACTCGTTGCTTTACTCTAACTACCAACAAAATGATCATTATGATTTTGACCCTTACTCTTACACTACTACTCCATCTTCTTCTGTTGATTGCACACTCTCGCTTGCTACCCCTTCAACACGTTTATCTGAAGACCAAGATAAACGAAACCGTCGCTCCTCTCTTGCTAATTTTTTTTGTAGCAAATCTTCAAACACAAAACATAATTCTCAATCTCAATCTAAGTCAAGCAAAGGAAACAATATTGGTAGTAACTCTAACAATGATTCTCTTCTTTCTCGTCGATGTGCTAGCTGTGACACCACTTCTACACCCCTTTGGAGGAATGGTCCTCGTGGCCCAAAGTCACTATGCAATGCTTGCGGGATTAGATACAAGAAGGAAGAGAGAAGAGCGAACGCCGCGGTTGCCACTACAGCCGCGACTAACAGCGGCATAATGGAGTCAGGAAACTTCTACAACAACAACAATTCATGGTACTCACAACCACAGAGTCAAATGTATGGCAATGAGCTAAGTTTCATGGATGATTCAGATGCAGAATCAGAAAATGGCATTCCAAATTTCCTTTCTTGGAGACTCAACACAAGTCTTGTTCACGATTACACAAGATGA

Protein sequence

>MsaT044330.1

MMHHCCSSSQQGHIMGGTCTCGMFHPQTNSNYSLLYSNYQQNDHYDFDPYSYTTTPSSSVDCTLSLATPSTRLSEDQDKRNRRSSLANFFCSKSSNTKHNSQSQSKSSKGNNIGSNSNNDSLLSRRCASCDTTSTPLWRNGPRGPKSLCNACGIRYKKEERRANAAVATTAATNSGIMESGNFYNNNNSWYSQPQSQMYGNELSFMDDSDAESENGIPNFLSWRLNTSLVHDYTR*