AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG031623

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG031623 MtrunA17_Chr3g0125801 83.929 56 9 0 1 56 1 56 4.88e-26 102
MsaG031623 MtrunA17_Chr4g0065651 92.453 53 4 0 163 215 460 512 1.11e-14 72.0
MsaG031623 MtrunA17_Chr0c22g0493871 88.679 53 6 0 163 215 78 130 2.52e-14 67.0
MsaG031623 MtrunA17_Chr4g0065611 88.679 53 6 0 163 215 90 142 2.89e-14 67.4
MsaG031623 MtrunA17_Chr6g0480581 62.791 43 16 0 14 56 2 44 1.57e-12 64.7
MsaG031623 MtrunA17_Chr4g0042501 58.696 46 19 0 11 56 100 145 2.12e-11 62.4
MsaG031623 MtrunA17_Chr5g0417621 50.877 57 25 1 3 56 118 174 5.51e-11 61.2
MsaG031623 MtrunA17_Chr7g0254261 51.786 56 24 1 1 53 71 126 6.18e-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
MsaG031623 AT1G17950.1 65.116 43 15 0 14 56 3 45 6.41e-13 66.2
MsaG031623 AT1G73410.2 70.000 40 12 0 14 53 4 43 5.29e-12 62.8
MsaG031623 AT1G73410.1 65.116 43 15 0 14 56 4 46 5.92e-12 63.5
MsaG031623 AT4G33450.1 52.632 57 26 1 1 56 3 59 7.84e-12 63.2

Find 76 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGATTCCCCTGCATCATTTC+CGG 0.229901 6:+30965420 MsaT031623.1:CDS
CCCTGCATCATTTCCGGGCC+TGG 0.289689 6:+30965426 MsaT031623.1:CDS
AACAATATGGTGCTGAAAAT+TGG 0.291230 6:+30964434 MsaT031623.1:CDS
CGTCAACTTGTTGAACAATA+TGG 0.317875 6:+30964421 MsaT031623.1:CDS
TAAGGATCTGGAGGAGGATA+AGG 0.339463 6:-30965670 None:intergenic
TTACCACCCATTTGGTTCAT+TGG 0.343560 6:+30965510 MsaT031623.1:CDS
GATTCCCCTGCATCATTTCC+GGG 0.360902 6:+30965421 MsaT031623.1:CDS
CGGGCATGTTACCACCCATT+TGG 0.411802 6:+30965502 MsaT031623.1:CDS
GGTAACATGCCCGCTGTTCA+AGG 0.418407 6:-30965492 None:intergenic
TTTCAAGGTGGTGGTGGTCC+AGG 0.433093 6:+30965317 MsaT031623.1:CDS
TTTCAAGGTGGTGGTGGTCC+AGG 0.433093 6:-30965444 None:intergenic
TGTTGCTGTTGTTGTTGATA+AGG 0.433402 6:+30965399 MsaT031623.1:CDS
TGGTTCATTGGCATACTCAT+TGG 0.433991 6:+30965522 MsaT031623.1:CDS
TCCAGGCCCGGAAATGATGC+AGG 0.454487 6:-30965427 None:intergenic
AAGGATCTGGAGGAGGATAA+GGG 0.466318 6:-30965669 None:intergenic
AAAGCATGTGAGTAAGGATC+TGG 0.469198 6:-30965682 None:intergenic
AATGCATACCTGATATTCCT+TGG 0.469302 6:-30964477 None:intergenic
GGTCTACCGGCAGGCGGACG+AGG 0.474962 6:-30965471 None:intergenic
TCACTGAAAGCATGTGAGTA+AGG 0.480372 6:-30965688 None:intergenic
GCCGGTAGACCTTGAACAGC+GGG 0.493615 6:+30965483 MsaT031623.1:CDS
TGTTGCGGTTGTTGTTGATA+AGG 0.493752 6:-30965362 None:intergenic
GGTCTACCCGCAGGCGGACG+AGG 0.494520 6:+30965290 MsaT031623.1:intron
AGAGTTGTCCACGTGGTCAC+TGG 0.498220 6:+30964374 MsaT031623.1:CDS
AGGTGGTGGTGGTCCAGGCC+CGG 0.500129 6:-30965439 None:intergenic
AAGTATCCTCGTCCGCCTGC+CGG 0.500903 6:+30965465 MsaT031623.1:CDS
GGTGGCCTTGCATACATCAT+TGG 0.504586 6:-30965616 None:intergenic
TCTGGAGGAGGATAAGGGTA+AGG 0.506412 6:-30965664 None:intergenic
GCCCGCTGTTCAAGGTCTAC+CGG 0.510192 6:-30965484 None:intergenic
AGGTCCGCTGAGTATGCCAA+TGG 0.510814 6:-30965568 None:intergenic
ATATTACATACTATTGCAGC+TGG 0.516524 6:-30965722 None:intergenic
GAGTATGCCAATGAACCAAA+TGG 0.517292 6:-30965517 None:intergenic
CCAGGCCCGAAAATGATGTA+GGG 0.518516 6:+30965335 MsaT031623.1:CDS
CTGAGTATGCCAATGGGTGG+TGG 0.527268 6:+30965200 MsaT031623.1:CDS
ATTGGCATACTCAGCGGACC+TGG 0.528746 6:+30965570 MsaT031623.1:CDS
GTGACCACGTGGACAACTCT+TGG 0.531230 6:-30964371 None:intergenic
ATGTAATTCACCTCAGGAGG+TGG 0.534211 6:-30965634 None:intergenic
CTGAGTATGCCAATGGGTGG+TGG 0.540107 6:-30965561 None:intergenic
AGGGTCGCTGAGTATGCCAA+TGG 0.542496 6:+30965193 MsaT031623.1:intron
GGCGGACGAGGATACTTTCA+AGG 0.542652 6:+30965302 MsaT031623.1:intron
GGCGGACGAGGATACTTTCA+AGG 0.543946 6:-30965459 None:intergenic
CGAGGATACTTTCAAGGTGG+TGG 0.545936 6:+30965308 MsaT031623.1:CDS
CGAGGATACTTTCAAGGTGG+TGG 0.545936 6:-30965453 None:intergenic
GGAGGAGGATAAGGGTAAGG+AGG 0.547967 6:-30965661 None:intergenic
TTATTACCTCCACCACCCAT+TGG 0.556860 6:-30965209 None:intergenic
GCTGTTCAAGGTCTACCGGC+AGG 0.561063 6:-30965480 None:intergenic
CTATTACCTCCACCACCCAT+TGG 0.561253 6:+30965552 MsaT031623.1:CDS
GGATACATGTAATTCACCTC+AGG 0.568572 6:-30965640 None:intergenic
GGATACTTTCAAGGTGGTGG+TGG 0.569745 6:+30965311 MsaT031623.1:CDS
GGATACTTTCAAGGTGGTGG+TGG 0.569745 6:-30965450 None:intergenic
AGCAGCCAATGATGTATGCA+AGG 0.586173 6:+30965611 MsaT031623.1:CDS
TCCAGGCCCGAAAATGATGT+AGG 0.589739 6:+30965334 MsaT031623.1:CDS
CCAGGCCCGGAAATGATGCA+GGG 0.592438 6:-30965426 None:intergenic
AGTATGCCAATGGGTGGTGG+AGG 0.595369 6:+30965203 MsaT031623.1:CDS
AGTATGCCAATGGGTGGTGG+AGG 0.595369 6:-30965558 None:intergenic
GGGTCGCTGAGTATGCCAAT+GGG 0.598306 6:+30965194 MsaT031623.1:intron
TGTGAGTAAGGATCTGGAGG+AGG 0.603879 6:-30965676 None:intergenic
GGTCCGCTGAGTATGCCAAT+GGG 0.606777 6:-30965567 None:intergenic
AGTATGCCAATGAACCAAAT+GGG 0.610690 6:-30965516 None:intergenic
ATTTAATGATGCTGATGTTG+CGG 0.612617 6:-30965377 None:intergenic
TGCCGGTAGACCTTGAACAG+CGG 0.628019 6:+30965482 MsaT031623.1:CDS
GCATGTGAGTAAGGATCTGG+AGG 0.633919 6:-30965679 None:intergenic
TACATGTAATTCACCTCAGG+AGG 0.640426 6:-30965637 None:intergenic
GTTCAAGGTCTACCGGCAGG+CGG 0.643780 6:-30965477 None:intergenic
CAGGCCCGGAAATGATGCAG+GGG 0.655018 6:-30965425 None:intergenic
GGTGGTGGAGGTAATAGTGT+GGG 0.660266 6:-30965546 None:intergenic
CAGGCCCGAAAATGATGTAG+GGG 0.663601 6:+30965336 MsaT031623.1:CDS
TCGCTGAGTATGCCAATGGG+TGG 0.666333 6:+30965197 MsaT031623.1:CDS
GTATGCAAGGCCACCTCCTG+AGG 0.686248 6:+30965624 MsaT031623.1:CDS
ATGCCAATGAACCAAATGGG+TGG 0.690349 6:-30965513 None:intergenic
GGGTGGTGGAGGTAATAGTG+TGG 0.692199 6:-30965547 None:intergenic
CCGCTGAGTATGCCAATGGG+TGG 0.699035 6:-30965564 None:intergenic
CCACCCATTGGCATACTCAG+CGG 0.700638 6:+30965564 MsaT031623.1:CDS
GCGGGTCGCCAGTGACCACG+TGG 0.707521 6:-30964382 None:intergenic
GGACGAGGATACTTTCAAGG+TGG 0.730460 6:+30965305 MsaT031623.1:CDS
GGACGAGGATACTTTCAAGG+TGG 0.730460 6:-30965456 None:intergenic
GATACCAAGAGTTGTCCACG+TGG 0.762573 6:+30964367 MsaT031623.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 30964340 30965741 30964340 ID=MsaG031623
Chr6 mRNA 30964340 30965741 30964340 ID=MsaT031623.1;Parent=MsaG031623
Chr6 exon 30964340 30964490 30964340 ID=MsaT031623.1.exon1;Parent=MsaT031623.1
Chr6 CDS 30964340 30964490 30964340 ID=cds.MsaT031623.1;Parent=MsaT031623.1
Chr6 exon 30965071 30965098 30965071 ID=MsaT031623.1.exon2;Parent=MsaT031623.1
Chr6 CDS 30965071 30965098 30965071 ID=cds.MsaT031623.1;Parent=MsaT031623.1
Chr6 exon 30965195 30965224 30965195 ID=MsaT031623.1.exon3;Parent=MsaT031623.1
Chr6 CDS 30965195 30965224 30965195 ID=cds.MsaT031623.1;Parent=MsaT031623.1
Chr6 exon 30965303 30965741 30965303 ID=MsaT031623.1.exon4;Parent=MsaT031623.1
Chr6 CDS 30965303 30965741 30965303 ID=cds.MsaT031623.1;Parent=MsaT031623.1
Gene Sequence

>MsaT031623.1

ATGGAGGATTCTTCTTCTGCAGCTGAAGATACCAAGAGTTGTCCACGTGGTCACTGGCGACCCGCTGAAGATGAAAAACTTCGTCAACTTGTTGAACAATATGGTGCTGAAAATTGGAATTCAACTGCTGAAAAACTCCAAGGAATATCAGCTGGAAGTGTTCTCATTTCTGAAAGCATGGTCGCTGAGTATGCCAATGGGTGGTGGAGGCGGACGAGGATACTTTCAAGGTGGTGGTGGTCCAGGCCCGAAAATGATGTAGGGGAATCCTTATCAACAACAACCGCAACATCAGCATCATTAAATGTTGCTGTTGTTGTTGATAAGGATTCCCCTGCATCATTTCCGGGCCTGGACCACCACCACCTTGAAAGTATCCTCGTCCGCCTGCCGGTAGACCTTGAACAGCGGGCATGTTACCACCCATTTGGTTCATTGGCATACTCATTGGTCCCACACTATTACCTCCACCACCCATTGGCATACTCAGCGGACCTGGAAAATGATCAAAGATTTCAGCAGCCAATGATGTATGCAAGGCCACCTCCTGAGGTGAATTACATGTATCCTCCTTACCCTTATCCTCCTCCAGATCCTTACTCACATGCTTTCAGTGATGAGAACACTTCCAGCTGCAATAGTATGTAA
Protein sequence

>MsaT031623.1

MEDSSSAAEDTKSCPRGHWRPAEDEKLRQLVEQYGAENWNSTAEKLQGISAGSVLISESMVAEYANGWWRRTRILSRWWWSRPENDVGESLSTTTATSASLNVAVVVDKDSPASFPGLDHHHLESILVRLPVDLEQRACYHPFGSLAYSLVPHYYLHHPLAYSADLENDQRFQQPMMYARPPPEVNYMYPPYPYPPPDPYSHAFSDENTSSCNSM*