AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG000480

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000480 MtrunA17_Chr1g0151461 95.575 226 10 0 1 226 80 305 1.49e-138 390
MsaG000480 MtrunA17_Chr4g0071301 44.954 109 39 4 29 137 134 221 8.93e-18 80.5
MsaG000480 MtrunA17_Chr2g0299081 37.850 214 80 8 29 224 115 293 1.61e-16 76.6
MsaG000480 MtrunA17_Chr4g0068031 62.500 48 18 0 105 152 27 74 3.71e-16 72.8
MsaG000480 MtrunA17_Chr7g0271861 69.444 36 11 0 108 143 22 57 3.06e-13 64.3
MsaG000480 MtrunA17_Chr5g0404131 57.692 52 19 1 96 144 177 228 1.29e-12 65.9
MsaG000480 MtrunA17_Chr1g0199671 56.098 41 18 0 103 143 237 277 3.67e-11 61.6
MsaG000480 MtrunA17_Chr8g0373231 63.158 38 14 0 107 144 124 161 4.49e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000480 AT5G56860.1 41.985 131 49 6 29 141 142 263 4.45e-20 88.2
MsaG000480 AT5G49300.1 66.667 45 15 0 104 148 32 76 2.73e-17 75.9
MsaG000480 AT4G26150.1 43.220 118 26 4 29 139 147 230 2.11e-16 77.4
MsaG000480 AT5G26930.1 66.667 42 14 0 104 145 22 63 3.81e-16 72.4
MsaG000480 AT3G06740.1 66.667 42 14 0 105 146 38 79 1.00e-14 69.3
MsaG000480 AT4G16141.1 68.293 41 13 0 105 145 34 74 1.64e-14 70.1
MsaG000480 AT3G16870.1 57.143 56 20 1 105 160 39 90 3.09e-14 68.9
MsaG000480 AT4G36620.1 58.333 48 20 0 104 151 71 118 1.77e-12 64.7
MsaG000480 AT2G18380.1 68.293 41 12 1 108 147 92 132 3.57e-12 63.5
MsaG000480 AT5G25830.1 55.556 45 20 0 99 143 210 254 1.55e-11 63.2
MsaG000480 AT3G50870.1 65.789 38 13 0 107 144 151 188 2.88e-11 62.4
MsaG000480 AT1G08010.2 57.778 45 18 1 99 143 212 255 5.06e-11 61.6
MsaG000480 AT1G08010.1 57.778 45 18 1 99 143 212 255 5.06e-11 61.6
MsaG000480 AT1G08010.3 57.778 45 18 1 99 143 212 255 5.06e-11 61.6
MsaG000480 AT2G45050.1 46.000 50 27 0 94 143 165 214 8.08e-11 60.8

Find 53 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGTTGTTTGGTCTCATTAT+TGG 0.223553 1:-6294875 None:intergenic
ATGATGAAACCTAGTAATTA+TGG 0.301261 1:+6294941 MsaT000480.1:CDS
TTGTTACCGCTGTTACTACT+AGG 0.336848 1:-6295007 None:intergenic
TGTTACTACTAGGGCTTGTT+TGG 0.337618 1:-6294997 None:intergenic
CACTCCTCCATAGTGGGGTA+TGG 0.338618 1:-6295063 None:intergenic
GTCCAAGAAATCAAAATATA+AGG 0.340331 1:+6294969 MsaT000480.1:CDS
TTTGCAATGCTTGTGGAATC+AGG 0.357272 1:+6295685 MsaT000480.1:CDS
TCATCATAATCATAATCTAA+TGG 0.373491 1:-6295897 None:intergenic
CACAAATTTATCATCATCCT+TGG 0.395360 1:+6294742 MsaT000480.1:CDS
AGCAACGGCGGCACGACTTC+TGG 0.401059 1:+6295923 MsaT000480.1:CDS
TAATTACTAGGTTTCATCAT+TGG 0.409747 1:-6294938 None:intergenic
GTGGCTGCAATATTGTTGTT+TGG 0.421269 1:-6294887 None:intergenic
GGCTGAAGCTGCCAATGGTT+TGG 0.422143 1:+6295731 MsaT000480.1:CDS
CGAATTACCTTTGGACCCAT+AGG 0.444966 1:-6295088 None:intergenic
GGACTAGTACCATAATTACT+AGG 0.449247 1:-6294950 None:intergenic
ACTATGGAGGAGTGGCCCTA+TGG 0.450797 1:+6295072 MsaT000480.1:CDS
TGAGTCACGGGTCTGAGAAA+TGG 0.451328 1:+6294789 MsaT000480.1:CDS
CTTCTGGTGGATATATCTTC+TGG 0.451597 1:+6295939 MsaT000480.1:CDS
ACAGCGGTAACAACACCGTT+AGG 0.456940 1:+6295017 MsaT000480.1:CDS
CTATGGAGGAGTGGCCCTAT+GGG 0.464867 1:+6295073 MsaT000480.1:CDS
TTTATCATCATCCTTGGAGC+TGG 0.479939 1:+6294748 MsaT000480.1:CDS
CTTGATAGCTTTGTCAGTAG+TGG 0.482210 1:-6294906 None:intergenic
ACTCCTCCATAGTGGGGTAT+GGG 0.482841 1:-6295062 None:intergenic
GTACATCCCATACCCCACTA+TGG 0.488777 1:+6295056 MsaT000480.1:CDS
TTCTTAGTCTTGAATTGTGT+AGG 0.495944 1:-6295792 None:intergenic
GCTGCTATCTTCCAGCTCCA+AGG 0.513483 1:-6294759 None:intergenic
TGGTCTCATTATTGGAGTTG+TGG 0.515285 1:-6294867 None:intergenic
TCAGGCAGAGAAAGGCAAGA+AGG 0.520139 1:+6295703 MsaT000480.1:CDS
ACAACTTCAACTACTTCTGC+TGG 0.524955 1:+6295837 MsaT000480.1:CDS
CAGGCAGAGAAAGGCAAGAA+GGG 0.526577 1:+6295704 MsaT000480.1:CDS
GAATTACCTTTGGACCCATA+GGG 0.528192 1:-6295087 None:intergenic
AGGGGATGTAGCCAAACCAT+TGG 0.539225 1:-6295742 None:intergenic
CAGTCACTTTGCAATGCTTG+TGG 0.543553 1:+6295678 MsaT000480.1:intron
CAGCGGTAACAACACCGTTA+GGG 0.546032 1:+6295018 MsaT000480.1:CDS
ACCATTGGCAGCTTCAGCCA+TGG 0.551217 1:-6295727 None:intergenic
TTGTGGAATCAGGCAGAGAA+AGG 0.551715 1:+6295695 MsaT000480.1:CDS
TAGGGCCACTCCTCCATAGT+GGG 0.558056 1:-6295069 None:intergenic
TGTTACCGCTGTTACTACTA+GGG 0.563428 1:-6295006 None:intergenic
ATAGGGCCACTCCTCCATAG+TGG 0.566452 1:-6295070 None:intergenic
AGAAGTAGTTGAAGTTGTAG+AGG 0.579757 1:-6295832 None:intergenic
GAGAAAGGCAAGAAGGGCCA+TGG 0.585866 1:+6295710 MsaT000480.1:CDS
GAGTGGCCCTATGGGTCCAA+AGG 0.590272 1:+6295081 MsaT000480.1:CDS
TGATTATGATGAAGCAGCAA+CGG 0.614524 1:+6295908 MsaT000480.1:CDS
GCCATGGCTGAAGCTGCCAA+TGG 0.619219 1:+6295726 MsaT000480.1:CDS
AATGGATGTCTTCAAAGATG+AGG 0.632702 1:+6294807 MsaT000480.1:CDS
AACGGCGGCACGACTTCTGG+TGG 0.640817 1:+6295926 MsaT000480.1:CDS
ACAATCAGAACAAACCCTAA+CGG 0.645452 1:-6295032 None:intergenic
ACAATTCAAGACTAAGAACA+AGG 0.653202 1:+6295797 MsaT000480.1:CDS
CATACCCCACTATGGAGGAG+TGG 0.671274 1:+6295064 MsaT000480.1:CDS
CATCCCATACCCCACTATGG+AGG 0.682705 1:+6295059 MsaT000480.1:CDS
TTATGATGAAGCAGCAACGG+CGG 0.694941 1:+6295911 MsaT000480.1:CDS
AGGGCCACTCCTCCATAGTG+GGG 0.711722 1:-6295068 None:intergenic
ACAAGCCCTAGTAGTAACAG+CGG 0.724459 1:+6295001 MsaT000480.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 6294716 6295974 6294716 ID=MsaG000480
Chr1 mRNA 6294716 6295974 6294716 ID=MsaT000480.1;Parent=MsaG000480
Chr1 exon 6294716 6295102 6294716 ID=MsaT000480.1.exon1;Parent=MsaT000480.1
Chr1 CDS 6294716 6295102 6294716 ID=cds.MsaT000480.1;Parent=MsaT000480.1
Chr1 exon 6295681 6295974 6295681 ID=MsaT000480.1.exon2;Parent=MsaT000480.1
Chr1 CDS 6295681 6295974 6295681 ID=cds.MsaT000480.1;Parent=MsaT000480.1
Gene Sequence

>MsaT000480.1

ATGGTTGATTCAAGCAGTGCACGTGACACAAATTTATCATCATCCTTGGAGCTGGAAGATAGCAGCAAAAAGATGAGTCACGGGTCTGAGAAATGGATGTCTTCAAAGATGAGGTTGATGAATAAAATGATCAACACAACTGCTACTGTTGCCACAACTCCAATAATGAGACCAAACAACAATATTGCAGCCACTACTGACAAAGCTATCAAGACAACAACTCCAATGATGAAACCTAGTAATTATGGTACTAGTCCAAGAAATCAAAATATAAGGTACAACCAAACAAGCCCTAGTAGTAACAGCGGTAACAACACCGTTAGGGTTTGTTCTGATTGTAGTACATCCCATACCCCACTATGGAGGAGTGGCCCTATGGGTCCAAAGTCACTTTGCAATGCTTGTGGAATCAGGCAGAGAAAGGCAAGAAGGGCCATGGCTGAAGCTGCCAATGGTTTGGCTACATCCCCTAAAACTAAAGTGCTTAAGATAAAGAAGCCTACACAATTCAAGACTAAGAACAAGGTTTCTACTAGTACCTCTACAACTTCAACTACTTCTGCTGGCTCATCATCTCAAGATGTGAAGAAACTTGAATCTTTTCCATTAGATTATGATTATGATGAAGCAGCAACGGCGGCACGACTTCTGGTGGATATATCTTCTGGTGTTACTTATTGA
Protein sequence

>MsaT000480.1

MVDSSSARDTNLSSSLELEDSSKKMSHGSEKWMSSKMRLMNKMINTTATVATTPIMRPNNNIAATTDKAIKTTTPMMKPSNYGTSPRNQNIRYNQTSPSSNSGNNTVRVCSDCSTSHTPLWRSGPMGPKSLCNACGIRQRKARRAMAEAANGLATSPKTKVLKIKKPTQFKTKNKVSTSTSTTSTTSAGSSSQDVKKLESFPLDYDYDEAATAARLLVDISSGVTY*