AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG045468

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG045468 MtrunA17_Chr4g0063401 94.758 248 12 1 1 247 1 248 3.52e-178 493
MsaG045468 MtrunA17_Chr4g0063361 64.567 254 69 5 1 246 1 241 6.63e-117 337
MsaG045468 MtrunA17_Chr4g0063391 56.800 250 66 7 1 248 1 210 4.38e-87 261
MsaG045468 MtrunA17_Chr4g0063371 47.130 331 68 9 1 325 1 230 8.17e-75 229
MsaG045468 MtrunA17_Chr3g0098251 57.635 203 54 5 44 246 7 177 1.23e-73 226
MsaG045468 MtrunA17_Chr8g0360671 54.777 157 41 4 99 255 41 167 2.70e-47 157
MsaG045468 MtrunA17_Chr8g0366501 33.775 302 141 10 71 326 86 374 3.03e-40 145
MsaG045468 MtrunA17_Chr4g0063411 87.805 82 10 0 245 326 9 90 1.35e-32 116
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG045468 AT3G19360.1 44.753 324 131 10 42 326 59 373 2.12e-76 239
MsaG045468 AT3G19360.2 44.753 324 131 10 42 326 59 373 2.12e-76 239
MsaG045468 AT1G32360.1 32.550 298 159 8 71 326 85 382 3.94e-36 134
MsaG045468 AT2G35430.1 30.144 209 102 9 138 326 66 250 6.60e-16 76.6
MsaG045468 AT2G35430.1 35.849 106 46 4 77 168 71 168 2.88e-11 63.2

Find 101 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTGGTTCTCCAAAGTCTTT+TGG 0.221074 8:+73114115 MsaT045468.1:CDS
GCAATAAGCATTGGAAATAT+TGG 0.228785 8:+73114097 MsaT045468.1:CDS
ATGAGGATCCTGCTAGGTTT+AGG 0.244285 8:+73114044 MsaT045468.1:CDS
TGGGGATGGTTCTAACAATT+TGG 0.253072 8:+73114135 MsaT045468.1:CDS
CTAACAATTTGGAAGGCATT+AGG 0.254194 8:+73114146 MsaT045468.1:CDS
AAGAAGATCAATGGTATTTA+TGG 0.269407 8:+73116353 MsaT045468.1:CDS
CACTTACTTAGGTTGAAATT+AGG 0.275359 8:+73116329 MsaT045468.1:CDS
CAAGGCAGCCACCACCAAAT+TGG 0.283685 8:+73113927 MsaT045468.1:CDS
TGAGGATCCTGCTAGGTTTA+GGG 0.310738 8:+73114045 MsaT045468.1:CDS
CTAGGTTTAGGGATGATTCT+TGG 0.317545 8:+73114056 MsaT045468.1:CDS
GCAACACCTGTTGAGGCTTT+TGG 0.324209 8:-73116236 None:intergenic
TTCCAATAAGCGCTCCTTGC+TGG 0.328577 8:-73114181 None:intergenic
AGCCAGCAAGGAGCGCTTAT+TGG 0.331978 8:+73114179 MsaT045468.1:CDS
TCAATGGTATTTATGGTGAT+TGG 0.333200 8:+73116360 MsaT045468.1:CDS
CACTTCAATGATATCGTTGT+TGG 0.339985 8:-73113600 None:intergenic
ATACAGGGAGCTGTCCCTTT+GGG 0.341839 8:+73114227 MsaT045468.1:CDS
ACCTGAACTTAGTGCAGATT+CGG 0.365276 8:-73113781 None:intergenic
TCAAAGTGATCGTTATTGAT+TGG 0.371371 8:-73113635 None:intergenic
TAACAATTTGGAAGGCATTA+GGG 0.381170 8:+73114147 MsaT045468.1:CDS
CAAAGTGATCGTTATTGATT+GGG 0.381558 8:-73113634 None:intergenic
TAAGGCAGCCACCGCGGAAT+TGG 0.383871 8:+73113858 MsaT045468.1:CDS
ATGCTGCTTGTTCCTCGGTT+TGG 0.390724 8:-73113746 None:intergenic
AACGGTGAGGAATGTCCTTA+TGG 0.402090 8:+73114001 MsaT045468.1:CDS
AGGTTTGGTACTTGTAGAAA+TGG 0.405516 8:+73113800 MsaT045468.1:CDS
CCCGAATCTGCACTAAGTTC+AGG 0.412306 8:+73113780 MsaT045468.1:CDS
ATCTGCACTAAGTTCAGGTT+TGG 0.426557 8:+73113785 MsaT045468.1:CDS
CCTGAACTTAGTGCAGATTC+GGG 0.429469 8:-73113780 None:intergenic
CATACAGGGAGCTGTCCCTT+TGG 0.435906 8:+73114226 MsaT045468.1:CDS
GATTGATATGCCCTCCTTCA+AGG 0.436742 8:+73113708 MsaT045468.1:CDS
CTGCTTGTTCCTCGGTTTGG+TGG 0.444819 8:-73113743 None:intergenic
GCAGCCACCGCGGAATTGGC+AGG 0.444919 8:+73113862 MsaT045468.1:CDS
AAGGCAGCCACCACCAAATT+GGG 0.448398 8:+73113928 MsaT045468.1:CDS
CTGTGTCAATGGCAGCATAC+AGG 0.450029 8:+73114211 MsaT045468.1:CDS
GAACCATCCCCAAAAGACTT+TGG 0.450065 8:-73114124 None:intergenic
CTTGTTCCTCGGTTTGGTGG+AGG 0.456539 8:-73113740 None:intergenic
CACTTTGCTCATGGAGAAGC+AGG 0.457533 8:+73114259 MsaT045468.1:CDS
ATAAGAAGAAGCACTTACTT+AGG 0.466516 8:+73116318 MsaT045468.1:CDS
AGCAATTCTCGCCCTCTTGA+AGG 0.471550 8:-73113666 None:intergenic
CTACAGGTTGGAATATCGTC+TGG 0.476700 8:-73113551 None:intergenic
AAAATTGCAATTACGCTCAC+GGG 0.487194 8:+73113825 MsaT045468.1:CDS
ACTTCACCAAAAGCCTCAAC+AGG 0.492958 8:+73116230 MsaT045468.1:CDS
TCGTTATTGATTGGGATTTG+AGG 0.495130 8:-73113626 None:intergenic
GGAGGCTGAATCATCCTTGA+AGG 0.501461 8:-73113722 None:intergenic
GAGACCTGTCACTTTGCTCA+TGG 0.502581 8:+73114250 MsaT045468.1:CDS
CTCACGGGGCTGATGAGATA+AGG 0.504892 8:+73113840 MsaT045468.1:CDS
TTGATCCTCGCAACGACGAA+CGG 0.512205 8:+73113891 MsaT045468.1:CDS
CATGACAAAGGAAGAGGAGC+AGG 0.513127 8:+73116295 MsaT045468.1:CDS
TGATCTTCATCCCAATTTGG+TGG 0.514081 8:-73113938 None:intergenic
GAGTTACAAGCTCCTGGTGG+AGG 0.514447 8:+73116152 MsaT045468.1:intron
AAGCTACACTTATCACCATA+AGG 0.515098 8:-73114016 None:intergenic
GAAGGTAGGAGTAGAATCAT+TGG 0.517961 8:-73116258 None:intergenic
TTCTCCATGAGCAAAGTGAC+AGG 0.523166 8:-73114254 None:intergenic
TTCTTCATGAGGATCCTGCT+AGG 0.523992 8:+73114038 MsaT045468.1:CDS
GGAAGACAAAGCTGTGTCAA+TGG 0.532349 8:+73114200 MsaT045468.1:CDS
ATCATTGGCAACACCTGTTG+AGG 0.534873 8:-73116243 None:intergenic
GAATCATCCCTAAACCTAGC+AGG 0.537317 8:-73114052 None:intergenic
TCTTCATCCCAATTTGGTGG+TGG 0.537541 8:-73113935 None:intergenic
GATGGTTCTAACAATTTGGA+AGG 0.539743 8:+73114139 MsaT045468.1:CDS
GAGTGTTCTGCAATAAGCAT+TGG 0.542316 8:+73114088 MsaT045468.1:CDS
CATGAGTAGCCTTGTGGTGA+AGG 0.545217 8:-73116276 None:intergenic
AAGTGACAGGTCTCCCCAAA+GGG 0.549845 8:-73114241 None:intergenic
TGTGTCAATGGCAGCATACA+GGG 0.552109 8:+73114212 MsaT045468.1:CDS
CTGCGGTGGTGACATCCTAC+AGG 0.555913 8:-73113567 None:intergenic
GAAAATTGCAATTACGCTCA+CGG 0.559384 8:+73113824 MsaT045468.1:CDS
AAATCAGAGTTACAAGCTCC+TGG 0.561857 8:+73116146 MsaT045468.1:intron
AAATTAGGCAAGAAGATCAA+TGG 0.564267 8:+73116344 MsaT045468.1:CDS
CAACGACGAACGGCTTCAGA+TGG 0.574258 8:+73113901 MsaT045468.1:CDS
CTTTGTCATGAGTAGCCTTG+TGG 0.576482 8:-73116282 None:intergenic
TCAGCTTCAATGCCTCCACC+AGG 0.581762 8:-73116164 None:intergenic
AGTAGCCTTGTGGTGAAGGT+AGG 0.585355 8:-73116272 None:intergenic
GGCTGAATCATCCTTGAAGG+AGG 0.587591 8:-73113719 None:intergenic
GCTACTCATGACAAAGGAAG+AGG 0.589258 8:+73116289 MsaT045468.1:CDS
CTCGCCCTCTTGAAGGAATG+TGG 0.590307 8:-73113659 None:intergenic
TTGAGCCACATTCCTTCAAG+AGG 0.596203 8:+73113654 MsaT045468.1:CDS
TACAGGGAGCTGTCCCTTTG+GGG 0.596640 8:+73114228 MsaT045468.1:CDS
GGAGGGCATATCAATCCACT+AGG 0.602999 8:-73113701 None:intergenic
CTACTCCTACCTTCACCACA+AGG 0.611445 8:+73116267 MsaT045468.1:CDS
GGGCTGTGAACAAGCCAGCA+AGG 0.614710 8:+73114167 MsaT045468.1:CDS
TGAGCCACATTCCTTCAAGA+GGG 0.615845 8:+73113655 MsaT045468.1:CDS
TAAGTGTAGCTTTCTTCATG+AGG 0.621800 8:+73114027 MsaT045468.1:CDS
TGAAGCCGTTCGTCGTTGCG+AGG 0.623112 8:-73113896 None:intergenic
AAAGTGACAGGTCTCCCCAA+AGG 0.626382 8:-73114242 None:intergenic
CAGACGATATTCCAACCTGT+AGG 0.630277 8:+73113552 MsaT045468.1:CDS
AGCTCCTGCCAATTCCGCGG+TGG 0.631980 8:-73113866 None:intergenic
CACAAGGCTACTCATGACAA+AGG 0.641025 8:+73116283 MsaT045468.1:CDS
GAGGGCATATCAATCCACTA+GGG 0.647490 8:-73113700 None:intergenic
AACGGCTTCAGATGGAGACA+AGG 0.650858 8:+73113909 MsaT045468.1:CDS
GCTGAATCATCCTTGAAGGA+GGG 0.652254 8:-73113718 None:intergenic
ACTAGCTCCTGCCAATTCCG+CGG 0.663260 8:-73113869 None:intergenic
GGTGGTGACATCCTACAGGT+TGG 0.681473 8:-73113563 None:intergenic
ATGAGATAAGGCAGCCACCG+CGG 0.683865 8:+73113852 MsaT045468.1:CDS
TCAGAGTTACAAGCTCCTGG+TGG 0.696701 8:+73116149 MsaT045468.1:intron
GGGCATATCAATCCACTAGG+GGG 0.701239 8:-73113698 None:intergenic
ACAACGATATCATTGAAGTG+AGG 0.706867 8:+73113603 MsaT045468.1:CDS
ATTCAGCCTCCACCAAACCG+AGG 0.710090 8:+73113734 MsaT045468.1:CDS
CAAGAAGTATTACAACGGTG+AGG 0.717786 8:+73113988 MsaT045468.1:CDS
AAATTGCAATTACGCTCACG+GGG 0.722741 8:+73113826 MsaT045468.1:CDS
AGGGCATATCAATCCACTAG+GGG 0.727577 8:-73113699 None:intergenic
CTGTGCAAGAAGTATTACAA+CGG 0.729247 8:+73113983 MsaT045468.1:CDS
TTGGATGAAGCAAACTGCGG+TGG 0.740311 8:-73113581 None:intergenic
TTGTTGGATGAAGCAAACTG+CGG 0.811729 8:-73113584 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 73113542 73116394 73113542 ID=MsaG045468
Chr8 mRNA 73113542 73116394 73113542 ID=MsaT045468.1;Parent=MsaG045468
Chr8 exon 73113542 73114280 73113542 ID=MsaT045468.1.exon1;Parent=MsaT045468.1
Chr8 CDS 73113542 73114280 73113542 ID=cds.MsaT045468.1;Parent=MsaT045468.1
Chr8 exon 73116153 73116394 73116153 ID=MsaT045468.1.exon2;Parent=MsaT045468.1
Chr8 CDS 73116153 73116394 73116153 ID=cds.MsaT045468.1;Parent=MsaT045468.1
Gene Sequence

>MsaT045468.1

ATGAATTTTCCAGACGATATTCCAACCTGTAGGATGTCACCACCGCAGTTTGCTTCATCCAACAACGATATCATTGAAGTGAGGCCTCAAATCCCAATCAATAACGATCACTTTGAGCCACATTCCTTCAAGAGGGCGAGAATTGCTGATAACAATCCCCCTAGTGGATTGATATGCCCTCCTTCAAGGATGATTCAGCCTCCACCAAACCGAGGAACAAGCAGCATTTTTTTCAAGACCCGAATCTGCACTAAGTTCAGGTTTGGTACTTGTAGAAATGGCGAAAATTGCAATTACGCTCACGGGGCTGATGAGATAAGGCAGCCACCGCGGAATTGGCAGGAGCTAGTTGATCCTCGCAACGACGAACGGCTTCAGATGGAGACAAGGCAGCCACCACCAAATTGGGATGAAGATCAAAAAATCATTCACAAGATGAAGCTGTGCAAGAAGTATTACAACGGTGAGGAATGTCCTTATGGTGATAAGTGTAGCTTTCTTCATGAGGATCCTGCTAGGTTTAGGGATGATTCTTGGAAAACAAGAGAGTGTTCTGCAATAAGCATTGGAAATATTGGTTCTCCAAAGTCTTTTGGGGATGGTTCTAACAATTTGGAAGGCATTAGGGCTGTGAACAAGCCAGCAAGGAGCGCTTATTGGAAGACAAAGCTGTGTCAATGGCAGCATACAGGGAGCTGTCCCTTTGGGGAGACCTGTCACTTTGCTCATGGAGAAGCAGAGTTACAAGCTCCTGGTGGAGGCATTGAAGCTGAAGCTGCAGTTGCCATAGTAAGCTCAACAAAAGCTATCATTCCAACTTCACCAAAAGCCTCAACAGGTGTTGCCAATGATTCTACTCCTACCTTCACCACAAGGCTACTCATGACAAAGGAAGAGGAGCAGGATAAGAAGAAGCACTTACTTAGGTTGAAATTAGGCAAGAAGATCAATGGTATTTATGGTGATTGGATTGATGATTGA
Protein sequence

>MsaT045468.1

MNFPDDIPTCRMSPPQFASSNNDIIEVRPQIPINNDHFEPHSFKRARIADNNPPSGLICPPSRMIQPPPNRGTSSIFFKTRICTKFRFGTCRNGENCNYAHGADEIRQPPRNWQELVDPRNDERLQMETRQPPPNWDEDQKIIHKMKLCKKYYNGEECPYGDKCSFLHEDPARFRDDSWKTRECSAISIGNIGSPKSFGDGSNNLEGIRAVNKPARSAYWKTKLCQWQHTGSCPFGETCHFAHGEAELQAPGGGIEAEAAVAIVSSTKAIIPTSPKASTGVANDSTPTFTTRLLMTKEEEQDKKKHLLRLKLGKKINGIYGDWIDD*