AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG036435

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036435 MtrunA17_Chr8g0393041 88.136 59 7 0 307 365 167 225 1.19e-26 111
MsaG036435 MtrunA17_Chr5g0397931 72.881 59 14 1 236 292 483 541 1.95e-20 93.2
MsaG036435 MtrunA17_Chr6g0453261 66.667 87 29 0 52 138 94 180 9.75e-19 87.8
MsaG036435 MtrunA17_Chr1g0191741 53.448 58 27 0 308 365 132 189 3.50e-14 73.6
MsaG036435 MtrunA17_Chr4g0050371 57.407 54 23 0 308 361 178 231 2.71e-13 71.2
MsaG036435 MtrunA17_Chr1g0151541 51.351 74 28 2 236 301 723 796 2.01e-12 68.9
MsaG036435 MtrunA17_Chr4g0068411 36.000 125 65 5 236 358 520 631 5.30e-12 67.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036435 AT3G17970.2 62.712 59 22 0 307 365 162 220 3.33e-19 89.4
MsaG036435 AT3G17970.1 62.712 59 22 0 307 365 162 220 3.40e-19 89.7
MsaG036435 AT5G09420.1 60.714 56 22 0 307 362 175 230 6.61e-15 76.6
MsaG036435 AT1G08980.1 52.381 63 30 0 308 370 133 195 2.64e-13 71.2
MsaG036435 AT4G23050.2 52.542 59 26 1 236 292 528 586 5.11e-12 67.8
MsaG036435 AT4G23050.1 52.542 59 26 1 236 292 527 585 5.20e-12 67.8
MsaG036435 AT1G67890.1 50.847 59 27 1 236 292 547 605 1.12e-11 66.6
MsaG036435 AT1G67890.4 50.847 59 27 1 236 292 419 477 1.19e-11 66.6
MsaG036435 AT1G67890.3 50.847 59 27 1 236 292 547 605 1.27e-11 66.6
MsaG036435 AT1G67890.2 50.847 59 27 1 236 292 547 605 1.27e-11 66.6

Find 92 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGTCGATCCGGTGGTTTATT+TGG 0.138656 7:-34061685 None:intergenic
TTTCTTTGATAAAGGAAAAT+TGG 0.209588 7:+34061304 MsaT036435.1:CDS
CTGCAAATCCACAGAAAGTT+TGG 0.253643 7:+34060756 MsaT036435.1:CDS
TCAAAGACTTTCTTTGATAA+AGG 0.262285 7:+34061296 MsaT036435.1:CDS
AGGAAAGAACTCTGTGATTA+TGG 0.291331 7:-34061542 None:intergenic
AGCAATCAAGTGAGTTAATT+AGG 0.306294 7:+34060685 MsaT036435.1:CDS
ATGAGGGTGATGGGTGTTCT+AGG 0.323726 7:-34061223 None:intergenic
TTGAAGATAATTTATTCCTT+TGG 0.346376 7:-34061647 None:intergenic
TCTATTGAACGTGGTTGTTA+TGG 0.353509 7:+34061038 MsaT036435.1:CDS
CCAACTCTACGCAGTATATC+AGG 0.360852 7:-34061862 None:intergenic
TATAGACACTAACAACATTC+CGG 0.367420 7:+34060818 MsaT036435.1:CDS
GCTGGATTCCGTGGGATACT+TGG 0.368997 7:+34061751 MsaT036435.1:CDS
TCAACAAGTCTGGACACTAT+TGG 0.384191 7:+34061823 MsaT036435.1:CDS
GTTGCTTGTTCATCTATTGA+TGG 0.394365 7:+34061254 MsaT036435.1:CDS
AGTGATGATGCTGGTGAAAC+TGG 0.394792 7:+34060714 MsaT036435.1:CDS
AGTGTTGTTGAAAACGAAAA+TGG 0.402970 7:+34060936 MsaT036435.1:CDS
CACTTTGTGATGGAGCAAAT+AGG 0.403784 7:+34060643 MsaT036435.1:CDS
ATAGACACTAACAACATTCC+GGG 0.406387 7:+34060819 MsaT036435.1:CDS
CCTCTCTGCCGCCACCGCTC+AGG 0.407279 7:+34061174 MsaT036435.1:CDS
TTGTCCAATGGTAACCGATC+AGG 0.413275 7:+34061103 MsaT036435.1:CDS
AGATGAACAAGCAACATGTT+TGG 0.413737 7:-34061246 None:intergenic
GGCAGAGAGGGAACGAAGTC+CGG 0.418799 7:-34061161 None:intergenic
TATTGATGGCCGAACACTGC+TGG 0.428258 7:+34061268 MsaT036435.1:CDS
CATGGTAGCCTGAGCGGTGG+CGG 0.451227 7:-34061182 None:intergenic
CATACCCGTTTCAACAAGTC+TGG 0.453788 7:+34061813 MsaT036435.1:CDS
ATCTAACGTTAGACATCAAA+AGG 0.455033 7:+34061599 MsaT036435.1:CDS
CATTCTTCCCAAACTTTCTG+TGG 0.468295 7:-34060764 None:intergenic
TGCAAATCCACAGAAAGTTT+GGG 0.468905 7:+34060757 MsaT036435.1:CDS
TCTTGTGAAGTGTTCTGAAA+AGG 0.470377 7:-34061573 None:intergenic
GTTATTGATATCAAGCGAAA+AGG 0.471029 7:+34061080 MsaT036435.1:CDS
TTGATGAATCCAGCAGTGTT+CGG 0.478417 7:-34061277 None:intergenic
AGTCCGGTGGATCTGATAGA+TGG 0.480139 7:-34061145 None:intergenic
CACTATTGGTTGGTTTGCAA+AGG 0.484627 7:+34061837 MsaT036435.1:CDS
AGAGGGGTGAGAGTGCCTGC+TGG 0.491825 7:+34061733 MsaT036435.1:CDS
CTTTGATAAAGGAAAATTGG+AGG 0.492719 7:+34061307 MsaT036435.1:CDS
ACACCATATATTCTCAGAAA+AGG 0.493278 7:+34061515 MsaT036435.1:CDS
CGCCACCGCTCAGGCTACCA+TGG 0.493956 7:+34061183 MsaT036435.1:CDS
GTGTCCAGACTTGTTGAAAC+GGG 0.494320 7:-34061817 None:intergenic
CATGTAGTAACACGTCGATC+CGG 0.498411 7:-34061697 None:intergenic
TAATCACAGAGTTCTTTCCT+AGG 0.502454 7:+34061545 MsaT036435.1:CDS
TGTCCAATGGTAACCGATCA+GGG 0.505452 7:+34061104 MsaT036435.1:CDS
CTGAGCGGTGGCGGCAGAGA+GGG 0.509616 7:-34061173 None:intergenic
ATATTGCTTCCTTGCAATCC+CGG 0.514677 7:-34060837 None:intergenic
TCATCTGTAGGCATTAATCA+AGG 0.515128 7:+34061014 MsaT036435.1:CDS
AATCACAGAGTTCTTTCCTA+GGG 0.528477 7:+34061546 MsaT036435.1:CDS
CACATGGTTTCACTTTGTGA+TGG 0.533169 7:+34060633 None:intergenic
CATGTTTGGATGAGGGTGAT+GGG 0.533651 7:-34061232 None:intergenic
AGTGTCCAGACTTGTTGAAA+CGG 0.534842 7:-34061818 None:intergenic
TCTAGAGAAAGGTTCTTCCA+TGG 0.543236 7:+34060902 MsaT036435.1:CDS
AGTGAGTCAAATCTAGAGAA+AGG 0.545017 7:+34060891 MsaT036435.1:CDS
AACAACATTCCGGGATTGCA+AGG 0.548510 7:+34060828 MsaT036435.1:CDS
AGTATCCCACGGAATCCAGC+AGG 0.553674 7:-34061748 None:intergenic
ACATGTGACGTTTCATCTGT+AGG 0.554089 7:+34061002 MsaT036435.1:CDS
CTAGAGAAAGGTTCTTCCAT+GGG 0.556010 7:+34060903 MsaT036435.1:CDS
GGACTGTGTTGCATTACAAA+GGG 0.557662 7:-34061906 None:intergenic
CAAGTCTGGACACTATTGGT+TGG 0.562352 7:+34061827 MsaT036435.1:CDS
CGCTTGATATCAATAACAAG+CGG 0.562508 7:-34061074 None:intergenic
AGAGTGCCTGCTGGATTCCG+TGG 0.563237 7:+34061742 MsaT036435.1:CDS
CCTGATATACTGCGTAGAGT+TGG 0.571803 7:+34061862 MsaT036435.1:CDS
ACATGTTTGGATGAGGGTGA+TGG 0.573088 7:-34061233 None:intergenic
GGGACTGTGTTGCATTACAA+AGG 0.573217 7:-34061907 None:intergenic
AACACTGCCGCTGTTACCCA+TGG 0.575123 7:-34060919 None:intergenic
GGTTTATTTGGCAACGACGG+TGG 0.587615 7:-34061673 None:intergenic
CATCAAAAGGCATCTTAGCA+TGG 0.590160 7:+34061612 MsaT036435.1:CDS
TTGCCATCTATCAGATCCAC+CGG 0.596377 7:+34061142 MsaT036435.1:CDS
TAAACTGCGTGTTGAAGCCA+TGG 0.597395 7:-34061200 None:intergenic
AAGGAAAATTGGAGGAACAA+AGG 0.597613 7:+34061315 MsaT036435.1:CDS
CCTGAGCGGTGGCGGCAGAG+AGG 0.597792 7:-34061174 None:intergenic
CATGTGTTGATACTTCTAGA+GGG 0.605370 7:+34061716 MsaT036435.1:CDS
ATGGCTCTCGACGTTGCCAA+AGG 0.607066 7:+34061631 MsaT036435.1:CDS
ATCGAAATCCAAGTATCCCA+CGG 0.609479 7:-34061759 None:intergenic
ACAAGCAACATGTTTGGATG+AGG 0.614139 7:-34061240 None:intergenic
ACATGTGTTGATACTTCTAG+AGG 0.616849 7:+34061715 MsaT036435.1:CDS
TCCAATGGTAACCGATCAGG+GGG 0.616945 7:+34061106 MsaT036435.1:CDS
GTCGTTGCCAAATAAACCAC+CGG 0.617074 7:+34061678 MsaT036435.1:CDS
GTAGTAACACGTCGATCCGG+TGG 0.629540 7:-34061694 None:intergenic
AGCCATGGTAGCCTGAGCGG+TGG 0.630297 7:-34061185 None:intergenic
CAAGCGAAAAGGTTGTCCAA+TGG 0.631069 7:+34061091 MsaT036435.1:CDS
GGATCTGATAGATGGCAAGA+AGG 0.631288 7:-34061137 None:intergenic
AGGAACAATAGTGATGATGC+TGG 0.639339 7:+34060705 MsaT036435.1:CDS
GTCCAATGGTAACCGATCAG+GGG 0.643288 7:+34061105 MsaT036435.1:CDS
GTTCTGAAAAGGCTTCCCCT+AGG 0.643879 7:-34061562 None:intergenic
AATCAAGGTTCTATTGAACG+TGG 0.648501 7:+34061029 MsaT036435.1:CDS
GGTGGTTTATTTGGCAACGA+CGG 0.659116 7:-34061676 None:intergenic
ATCACAGAGTTCTTTCCTAG+GGG 0.664636 7:+34061547 MsaT036435.1:CDS
CAAGCAACATGTTTGGATGA+GGG 0.665304 7:-34061239 None:intergenic
GAGTGCCTGCTGGATTCCGT+GGG 0.666541 7:+34061743 MsaT036435.1:CDS
ACGTGGTTGTTATGGCACAA+AGG 0.670924 7:+34061046 MsaT036435.1:CDS
GGTTCTTCCATGGGTAACAG+CGG 0.676887 7:+34060912 MsaT036435.1:CDS
AGAGAGGGAACGAAGTCCGG+TGG 0.679615 7:-34061158 None:intergenic
ATGTGTTGATACTTCTAGAG+GGG 0.688463 7:+34061717 MsaT036435.1:CDS
TGAAGCCATGGTAGCCTGAG+CGG 0.705331 7:-34061188 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 34060636 34061915 34060636 ID=MsaG036435
Chr7 mRNA 34060636 34061915 34060636 ID=MsaT036435.1;Parent=MsaG036435
Chr7 exon 34060636 34061347 34060636 ID=MsaT036435.1.exon1;Parent=MsaT036435.1
Chr7 CDS 34060636 34061347 34060636 ID=cds.MsaT036435.1;Parent=MsaT036435.1
Chr7 exon 34061515 34061915 34061515 ID=MsaT036435.1.exon2;Parent=MsaT036435.1
Chr7 CDS 34061515 34061915 34061515 ID=cds.MsaT036435.1;Parent=MsaT036435.1
Gene Sequence

>MsaT036435.1

ATGGTTTCACTTTGTGATGGAGCAAATAGGAATGATGAATCAAAAGTTGAGCAATCAAGTGAGTTAATTAGGAACAATAGTGATGATGCTGGTGAAACTGGCAAAGTTGAAGTTGAAATGCTGCAAATCCACAGAAAGTTTGGGAAGAATGATATTGCTGAAAGAAAGAAATCAGATTCTTCTATAGACACTAACAACATTCCGGGATTGCAAGGAAGCAATATTTCTTATGAAAGCAGTGAAAAGTATGTGTCAAGTGAGTCAAATCTAGAGAAAGGTTCTTCCATGGGTAACAGCGGCAGTGTTGTTGAAAACGAAAATGGCGACACTGTTTTAAGAAGCTCTGCCCATTCTAGAAAAAAGGGGACATGTGACGTTTCATCTGTAGGCATTAATCAAGGTTCTATTGAACGTGGTTGTTATGGCACAAAGGAGTCACCGCTTGTTATTGATATCAAGCGAAAAGGTTGTCCAATGGTAACCGATCAGGGGGTTTTCAAGCCTTCTTGCCATCTATCAGATCCACCGGACTTCGTTCCCTCTCTGCCGCCACCGCTCAGGCTACCATGGCTTCAACACGCAGTTTACCTAGAACACCCATCACCCTCATCCAAACATGTTGCTTGTTCATCTATTGATGGCCGAACACTGCTGGATTCATCAAAGACTTTCTTTGATAAAGGAAAATTGGAGGAACAAAGGCACTTTCAAAACACCATATATTCTCAGAAAAGGCGAGCCATAATCACAGAGTTCTTTCCTAGGGGAAGCCTTTTCAGAACACTTCACAAGAACAATCTAACGTTAGACATCAAAAGGCATCTTAGCATGGCTCTCGACGTTGCCAAAGGAATAAATTATCTTCAATCTCCACCGTCGTTGCCAAATAAACCACCGGATCGACGTGTTACTACATGTGTTGATACTTCTAGAGGGGTGAGAGTGCCTGCTGGATTCCGTGGGATACTTGGATTTCGATTTTCACACGGTGCTGTTTTTCATGGGGGAATCATACCCGTTTCAACAAGTCTGGACACTATTGGTTGGTTTGCAAAGGATCCTGATATACTGCGTAGAGTTGGCCATATATATTTTTACAAGCACCCTTTGTAA
Protein sequence

>MsaT036435.1

MVSLCDGANRNDESKVEQSSELIRNNSDDAGETGKVEVEMLQIHRKFGKNDIAERKKSDSSIDTNNIPGLQGSNISYESSEKYVSSESNLEKGSSMGNSGSVVENENGDTVLRSSAHSRKKGTCDVSSVGINQGSIERGCYGTKESPLVIDIKRKGCPMVTDQGVFKPSCHLSDPPDFVPSLPPPLRLPWLQHAVYLEHPSPSSKHVACSSIDGRTLLDSSKTFFDKGKLEEQRHFQNTIYSQKRRAIITEFFPRGSLFRTLHKNNLTLDIKRHLSMALDVAKGINYLQSPPSLPNKPPDRRVTTCVDTSRGVRVPAGFRGILGFRFSHGAVFHGGIIPVSTSLDTIGWFAKDPDILRRVGHIYFYKHPL*