AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG029620

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG029620 MtrunA17_Chr5g0445971 85.714 168 21 2 1 168 1 165 1.80e-101 293
MsaG029620 MtrunA17_Chr5g0435401 63.636 242 83 3 34 271 44 284 1.54e-96 290
MsaG029620 MtrunA17_Chr5g0435401 62.500 104 34 2 177 279 264 363 6.75e-31 119
MsaG029620 MtrunA17_Chr1g0192841 60.345 116 37 2 166 272 44 159 1.90e-32 119
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG029620 AT1G55650.1 24.896 241 143 8 34 245 38 269 1.08e-11 64.7
MsaG029620 AT3G13350.1 22.989 261 156 10 36 255 46 302 9.90e-11 61.6

Find 58 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTCCTTCTTGAGGAATATT+TGG 0.163911 5:-79384918 None:intergenic
AGTAAAACAGGTACAAGTTT+AGG 0.215844 5:-79381008 None:intergenic
CTTTCTAAGGTCCAGTTAAA+AGG 0.247346 5:+79381706 MsaT029620.1:intron
AATTTGACTAGAGTAGTTCT+TGG 0.346592 5:-79381799 None:intergenic
GTAAAACAGGTACAAGTTTA+GGG 0.365515 5:-79381007 None:intergenic
AGTTGTTTCTGCTCTAAAAC+TGG 0.365684 5:+79381462 MsaT029620.1:CDS
TTCTTGCTTTCCTCTACATA+TGG 0.365771 5:-79385152 None:intergenic
AACTACTCTAGTCAAATTAC+AGG 0.369281 5:+79381804 MsaT029620.1:CDS
TGGTAACCACTTTGGTTCCT+TGG 0.370453 5:-79384898 None:intergenic
GATGTCGGACATTGATAAAA+AGG 0.374210 5:+79385011 MsaT029620.1:CDS
AGGTTGGCCATGAAAAGAAA+TGG 0.384383 5:+79381434 MsaT029620.1:intron
TTGAATGAGTTTGATATAGA+AGG 0.393011 5:-79380682 None:intergenic
TTGAGAAATTGTACTTCTAC+AGG 0.406380 5:+79381548 MsaT029620.1:CDS
AGAGGAAAGCAAGAAAATAA+TGG 0.419787 5:+79385160 MsaT029620.1:CDS
TAGAAGGTCTCCAAGTCATT+AGG 0.425705 5:-79380666 None:intergenic
TTGTGACCTCCAAGTAAAAC+AGG 0.431064 5:-79381020 None:intergenic
ACATTGGTGAGTTGTGTGTT+TGG 0.432104 5:-79380612 None:intergenic
GGAATATTTGGTAACCACTT+TGG 0.442677 5:-79384906 None:intergenic
CTCACCAATGTTGTCGTGTC+CGG 0.446758 5:+79380624 MsaT029620.1:CDS
AGTGCACTCAAGATCTTAAG+AGG 0.447998 5:+79385222 MsaT029620.1:CDS
GGTTGGCCATGAAAAGAAAT+GGG 0.467471 5:+79381435 MsaT029620.1:intron
TTGGATATCTTTGCCGCCAT+CGG 0.472444 5:-79381780 None:intergenic
CCTGCAACCGCCAATGCAAA+AGG 0.477405 5:+79381577 MsaT029620.1:CDS
TCGACTGAAAGCTGATCATC+AGG 0.477735 5:+79384945 MsaT029620.1:CDS
ACAAGTTTAGGGATGTTTCT+CGG 0.498193 5:-79380996 None:intergenic
AACAAATGGCTATTGATACT+TGG 0.501313 5:+79384983 MsaT029620.1:CDS
CATACGCGTCCGAAAACAAA+TGG 0.508342 5:+79384969 MsaT029620.1:CDS
CTCAATGGAAGACAAGGAAA+TGG 0.517620 5:+79380575 None:intergenic
GTCGAGCACATTCCTTCTTG+AGG 0.518278 5:-79384927 None:intergenic
TACTTGGAGGTCACAAGAAG+AGG 0.530713 5:+79381027 MsaT029620.1:CDS
GTATTCTTCTCCTAATGACT+TGG 0.531995 5:+79380656 MsaT029620.1:CDS
AAGGTCCAGTTAAAAGGAAG+CGG 0.550807 5:+79381712 MsaT029620.1:intron
CCAATGTTGTCGTGTCCGGC+GGG 0.557640 5:+79380628 MsaT029620.1:CDS
ACCAATGTTGTCGTGTCCGG+CGG 0.561143 5:+79380627 MsaT029620.1:CDS
GATTGAGATAAACTAGGGCA+TGG 0.567259 5:-79381738 None:intergenic
CCGTCGATTGAGATAAACTA+GGG 0.572781 5:-79381743 None:intergenic
AGGTCCAGTTAAAAGGAAGC+GGG 0.574528 5:+79381713 MsaT029620.1:intron
GTTTCTGCTCTAAAACTGGA+AGG 0.575106 5:+79381466 MsaT029620.1:CDS
TTACCAAATATTCCTCAAGA+AGG 0.579179 5:+79384915 MsaT029620.1:CDS
CCCGCCGGACACGACAACAT+TGG 0.584078 5:-79380628 None:intergenic
GGACGATGAAGATTATCCGA+TGG 0.584176 5:+79381764 MsaT029620.1:CDS
CCCTAGTTTATCTCAATCGA+CGG 0.593570 5:+79381743 MsaT029620.1:CDS
TTTGCATTGGCGGTTGCAGG+AGG 0.593878 5:-79381574 None:intergenic
TCCGTCGATTGAGATAAACT+AGG 0.600008 5:-79381744 None:intergenic
AGACAACTCAATGGAAGACA+AGG 0.602364 5:+79380569 None:intergenic
TTGGAGGTCACAAGAAGAGG+AGG 0.603112 5:+79381030 MsaT029620.1:CDS
AGAAACAGAGAGGTGCTCCA+AGG 0.610360 5:+79384881 MsaT029620.1:CDS
TTTCATGTAGCCATATGTAG+AGG 0.614803 5:+79385142 MsaT029620.1:intron
TGATACTTGGAAGAAGATGT+CGG 0.619673 5:+79384996 MsaT029620.1:CDS
ATTGAGATAAACTAGGGCAT+GGG 0.620189 5:-79381737 None:intergenic
GTGCACTCAAGATCTTAAGA+GGG 0.655456 5:+79385223 MsaT029620.1:CDS
CAAGGAAATGGTGAAGACGA+CGG 0.673865 5:+79380587 MsaT029620.1:CDS
CGATGAAGATTATCCGATGG+CGG 0.681671 5:+79381767 MsaT029620.1:CDS
AGAAGAATACTGTTTCCCGC+CGG 0.682409 5:-79380643 None:intergenic
GAAAAGAAGCATAATGTGTG+TGG 0.683498 5:+79385248 MsaT029620.1:CDS
AAAGAAAAGAAGAAACAGAG+AGG 0.700139 5:+79384871 MsaT029620.1:CDS
GGTGCTCCAAGGAACCAAAG+TGG 0.716106 5:+79384892 MsaT029620.1:CDS
GTTGGCCATGAAAAGAAATG+GGG 0.719191 5:+79381436 MsaT029620.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 79380579 79385280 79380579 ID=MsaG029620
Chr5 mRNA 79380579 79385280 79380579 ID=MsaT029620.1;Parent=MsaG029620
Chr5 exon 79380579 79380727 79380579 ID=MsaT029620.1.exon1;Parent=MsaT029620.1
Chr5 CDS 79380579 79380727 79380579 ID=cds.MsaT029620.1;Parent=MsaT029620.1
Chr5 exon 79380987 79381062 79380987 ID=MsaT029620.1.exon2;Parent=MsaT029620.1
Chr5 CDS 79380987 79381062 79380987 ID=cds.MsaT029620.1;Parent=MsaT029620.1
Chr5 exon 79381436 79381598 79381436 ID=MsaT029620.1.exon3;Parent=MsaT029620.1
Chr5 CDS 79381436 79381598 79381436 ID=cds.MsaT029620.1;Parent=MsaT029620.1
Chr5 exon 79381715 79381825 79381715 ID=MsaT029620.1.exon4;Parent=MsaT029620.1
Chr5 CDS 79381715 79381825 79381715 ID=cds.MsaT029620.1;Parent=MsaT029620.1
Chr5 exon 79384821 79385032 79384821 ID=MsaT029620.1.exon5;Parent=MsaT029620.1
Chr5 CDS 79384821 79385032 79384821 ID=cds.MsaT029620.1;Parent=MsaT029620.1
Chr5 exon 79385152 79385280 79385152 ID=MsaT029620.1.exon6;Parent=MsaT029620.1
Chr5 CDS 79385152 79385280 79385152 ID=cds.MsaT029620.1;Parent=MsaT029620.1
Gene Sequence

>MsaT029620.1

ATGGAAGACAAGGAAATGGTGAAGACGACGGTTCCAAACACACAACTCACCAATGTTGTCGTGTCCGGCGGGAAACAGTATTCTTCTCCTAATGACTTGGAGACCTTCTATATCAAACTCATTCAACTTTTAGACTTCGCTGGAAAACGTTTCAATGTCCGAGAAACATCCCTAAACTTGTACCTGTTTTACTTGGAGGTCACAAGAAGAGGAGGTTTTCACCAGGTTGGCCATGAAAAGAAATGGGGTGAAGTTGTTTCTGCTCTAAAACTGGAAGGAAACAATGCAACCTTATGTGCTCAAGTTGAAAAACTCTATGGTCATCTTCTTTACGAATTTGAGAAATTGTACTTCTACAGGTCTCCTCCTGCAACCGCCAATGCAAAAGGTCCAGTTAAAAGGAAGCGGGACCCATGCCCTAGTTTATCTCAATCGACGGACGATGAAGATTATCCGATGGCGGCAAAGATATCCAAGAACTACTCTAGTCAAATTACAGGAGATGGATATCATGAATCTCAAGTGTTTCAACAAGCACCCTCAAGTAACAAAGAAAAGAAGAAACAGAGAGGTGCTCCAAGGAACCAAAGTGGTTACCAAATATTCCTCAAGAAGGAATGTGCTCGACTGAAAGCTGATCATCAGGACATACGCGTCCGAAAACAAATGGCTATTGATACTTGGAAGAAGATGTCGGACATTGATAAAAAGCCATATGTAGAGGAAAGCAAGAAAATAATGGAAAAAAACAAAGAAGCAATGATAGTTGACAATGAACAGAAGTGCACTCAAGATCTTAAGAGGGATGAAAAGAAGCATAATGTGTGTGGTGACTACTAA
Protein sequence

>MsaT029620.1

MEDKEMVKTTVPNTQLTNVVVSGGKQYSSPNDLETFYIKLIQLLDFAGKRFNVRETSLNLYLFYLEVTRRGGFHQVGHEKKWGEVVSALKLEGNNATLCAQVEKLYGHLLYEFEKLYFYRSPPATANAKGPVKRKRDPCPSLSQSTDDEDYPMAAKISKNYSSQITGDGYHESQVFQQAPSSNKEKKKQRGAPRNQSGYQIFLKKECARLKADHQDIRVRKQMAIDTWKKMSDIDKKPYVEESKKIMEKNKEAMIVDNEQKCTQDLKRDEKKHNVCGDY*