AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG038126

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038126 MtrunA17_Chr7g0243151 92.922 551 35 2 1 551 39 585 0.0 1022
MsaG038126 MtrunA17_Chr3g0114841 25.310 403 250 15 180 549 115 499 1.92e-16 82.4
MsaG038126 MtrunA17_Chr5g0424131 25.750 400 250 15 180 549 116 498 7.64e-16 80.5
MsaG038126 MtrunA17_Chr7g0224271 25.404 433 242 21 164 550 276 673 5.15e-13 72.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 92 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTCATGAATATTACCAATT+TGG 0.125992 7:-71726345 None:intergenic
ACCAATTTGGGGACTCAAAA+TGG 0.187480 7:-71726332 None:intergenic
CACATAATTGATTATTGTTT+TGG 0.189427 7:+71726928 MsaT038126.1:CDS
TGAAATTGACATCAATTAAA+TGG 0.189748 7:+71727007 MsaT038126.1:CDS
TTTCTTCATCAATTGGAAAT+TGG 0.210829 7:-71726267 None:intergenic
TTGGAAATTGGATATGATTA+TGG 0.210900 7:-71726255 None:intergenic
TTCATGAATATTACCAATTT+GGG 0.226150 7:-71726344 None:intergenic
TACTTTGCCACAAGAAAATA+TGG 0.244532 7:+71726579 MsaT038126.1:CDS
AAATGAGAATCAACTTGTTT+TGG 0.251878 7:+71727665 MsaT038126.1:CDS
AACTCCCTTCACTTTCTTCT+TGG 0.266056 7:-71726378 None:intergenic
CTTGTATATCTTCTCTTGAT+TGG 0.270075 7:+71727490 MsaT038126.1:CDS
CATTAGAGATGGAAGTTCTA+AGG 0.276688 7:-71726290 None:intergenic
AGCAAGGGAATTATTACTTT+TGG 0.295898 7:+71727306 MsaT038126.1:CDS
CCTCGGAGACGGTTGTAAAA+TGG 0.318498 7:+71726450 MsaT038126.1:CDS
TCTAAGGTTTCTTCATCAAT+TGG 0.336948 7:-71726274 None:intergenic
GATATGATTATGGGTGAATA+TGG 0.340804 7:-71726245 None:intergenic
GATGACCGGTCTTCCTCATA+TGG 0.343694 7:+71727209 MsaT038126.1:CDS
CTTAGAACTTCCATCTCTAA+TGG 0.346666 7:+71726291 MsaT038126.1:CDS
ATACTCATAAAGTTCCCTTT+TGG 0.352894 7:-71727070 None:intergenic
CTCTTGATTGGTTGCAAACA+TGG 0.356216 7:+71727502 MsaT038126.1:CDS
TCTTGTATGCCTCGCCTTTG+AGG 0.374060 7:-71726789 None:intergenic
AGTGAGTCTTCCACACTTGA+TGG 0.390562 7:+71726615 MsaT038126.1:CDS
TGGAAATTGGATATGATTAT+GGG 0.400619 7:-71726254 None:intergenic
ATGAAAATTCTGCATCTGTT+TGG 0.402276 7:+71727034 MsaT038126.1:CDS
GAAGGTAGAGGAAAAGGAAT+TGG 0.405087 7:+71727116 MsaT038126.1:CDS
GAAATTGAAGGTAGAGGAAA+AGG 0.406350 7:+71727110 MsaT038126.1:CDS
TTTATCAAGGAAATTTGGTT+GGG 0.424798 7:+71726836 MsaT038126.1:CDS
GGTGCATTACAAGGCTTTGT+TGG 0.436581 7:+71727395 MsaT038126.1:CDS
GAAACAGTCTCCAATAGAAA+AGG 0.449571 7:-71726967 None:intergenic
AGTGATGGCTATCATCATAA+AGG 0.457503 7:+71727537 MsaT038126.1:CDS
GAGGATTTGATCAAGAACTA+TGG 0.460555 7:+71727282 MsaT038126.1:CDS
TTGGCTTTCAATTTGATGAC+CGG 0.461685 7:+71727195 MsaT038126.1:CDS
GTCTCAAGAGAGTCACCAAT+TGG 0.467270 7:-71726721 None:intergenic
TCATATCAAGCAAGAATTGA+AGG 0.470729 7:+71727639 MsaT038126.1:CDS
GATCAAAATAAAGAACGAAA+AGG 0.473295 7:+71727155 MsaT038126.1:CDS
TGCATCTGTTTGGAATTTCG+AGG 0.475745 7:+71727044 MsaT038126.1:CDS
CTATACCCTTCGAGGTTATG+TGG 0.478048 7:-71726418 None:intergenic
TGCATGTGAAATATTGTTTG+TGG 0.478742 7:+71727464 MsaT038126.1:CDS
TCTGATATCATTGAAAGTGT+TGG 0.484635 7:-71726532 None:intergenic
AGGGAATTTGGTGCATTACA+AGG 0.487309 7:+71727386 MsaT038126.1:CDS
ACATGCTTATGAATGTTTGA+AGG 0.491685 7:+71727254 MsaT038126.1:CDS
CTTCTAACCATTCCCATATG+AGG 0.492028 7:-71727222 None:intergenic
ATGACCGGTCTTCCTCATAT+GGG 0.495090 7:+71727210 MsaT038126.1:CDS
TGTTGGACTCCATGCATCAC+AGG 0.496115 7:-71726515 None:intergenic
GCTCAAGAAGTGACAAATCA+TGG 0.497130 7:+71726760 MsaT038126.1:CDS
ATCAAAATAAAGAACGAAAA+GGG 0.498103 7:+71727156 MsaT038126.1:CDS
GGAATTTCGAGGATACCAAA+AGG 0.507394 7:+71727055 MsaT038126.1:CDS
TCATCCATGATGATGCCATA+TGG 0.508726 7:-71726106 None:intergenic
TCATCCATGATGATGCCATA+TGG 0.509020 7:-71726151 None:intergenic
ATCATGTGGTTTGAAATTGA+AGG 0.512511 7:+71727098 MsaT038126.1:CDS
CATGGTGAAGCCTTGGAGAA+AGG 0.516575 7:+71726643 MsaT038126.1:CDS
TATTTGAACTATACCCTTCG+AGG 0.518294 7:-71726426 None:intergenic
GGAAGCACATGGTGAAGCCT+TGG 0.523810 7:+71726636 MsaT038126.1:CDS
TGGTTTGAAATTGAAGGTAG+AGG 0.525487 7:+71727104 MsaT038126.1:CDS
GATGATGACTATGTTCCATA+TGG 0.526351 7:+71726136 MsaT038126.1:CDS
GTTGATGACTATGATCCATA+TGG 0.530988 7:+71726091 MsaT038126.1:CDS
GAATTTCGAGGATACCAAAA+GGG 0.531446 7:+71727056 MsaT038126.1:CDS
TAAAGGGAAATGATCATAAG+TGG 0.536816 7:-71726482 None:intergenic
CGGTCTTCCTCATATGGGAA+TGG 0.548383 7:+71727215 MsaT038126.1:CDS
ATCAAGAACTATGGTAGCAA+GGG 0.551686 7:+71727291 MsaT038126.1:CDS
AAAATTCTCCCTGTGATGCA+TGG 0.552151 7:+71726506 MsaT038126.1:CDS
TATGAGTATGCTAAATCATG+TGG 0.552563 7:+71727084 MsaT038126.1:CDS
GGTGAGATTAGCTTAGAATG+TGG 0.554171 7:+71727558 MsaT038126.1:CDS
GAATCTAATTCCATTAGAGA+TGG 0.557271 7:-71726301 None:intergenic
GAAATGATCATAAGTGGCAC+TGG 0.557550 7:-71726476 None:intergenic
TGATCCATATGGCATCATCA+TGG 0.565829 7:+71726102 MsaT038126.1:CDS
TGTTCCATATGGCATCATCA+TGG 0.566239 7:+71726147 MsaT038126.1:CDS
GATCAAGAACTATGGTAGCA+AGG 0.567301 7:+71727290 MsaT038126.1:CDS
ATAGTTCTTGATCAAATCCT+CGG 0.572634 7:-71727280 None:intergenic
CATTCCCATATGAGGAAGAC+CGG 0.576719 7:-71727214 None:intergenic
TCAAGTGTGGAAGACTCACT+TGG 0.579458 7:-71726612 None:intergenic
CAATCAAGAGAAGATATACA+AGG 0.583066 7:-71727489 None:intergenic
GAAGTCAGAGAAATGTTGAG+AGG 0.583320 7:+71727606 MsaT038126.1:CDS
TCTTGATTGGTTGCAAACAT+GGG 0.586740 7:+71727503 MsaT038126.1:CDS
TATTACCAAGAAGAAAGTGA+AGG 0.596617 7:+71726373 MsaT038126.1:CDS
TGGGAAGAGATGAAAAGTGA+TGG 0.608114 7:+71727522 MsaT038126.1:CDS
CCATGTGCTTCCATCAAGTG+TGG 0.618160 7:-71726625 None:intergenic
ATTACCAAGAAGAAAGTGAA+GGG 0.618537 7:+71726374 MsaT038126.1:CDS
TCATGAATATTACCAATTTG+GGG 0.620776 7:-71726343 None:intergenic
AGTTCAAATAACCTCGGAGA+CGG 0.630207 7:+71726439 MsaT038126.1:CDS
ATGATCATAAGTGGCACTGG+CGG 0.631598 7:-71726473 None:intergenic
GTTGGACTCCATGCATCACA+GGG 0.638138 7:-71726514 None:intergenic
GTCATCAACATGGTCAACCA+TGG 0.639550 7:-71726077 None:intergenic
GGGTATAGTTCAAATAACCT+CGG 0.650625 7:+71726433 MsaT038126.1:CDS
CCACACTTGATGGAAGCACA+TGG 0.654957 7:+71726625 MsaT038126.1:CDS
AATCATGGAGAATACCTCAA+AGG 0.661739 7:+71726775 MsaT038126.1:CDS
AAGAGAGTCACCAATTGGAG+TGG 0.663623 7:-71726716 None:intergenic
TGAATGTTTGAAGGTAGCCG+AGG 0.670390 7:+71727263 MsaT038126.1:CDS
AAAATAAAGAACGAAAAGGG+CGG 0.683472 7:+71727159 MsaT038126.1:CDS
TGGAGAATACCTCAAAGGCG+AGG 0.686092 7:+71726780 MsaT038126.1:CDS
GAACATAGTCATCATCAACA+TGG 0.707488 7:-71726129 None:intergenic
ATGGATCATAGTCATCAACA+TGG 0.710348 7:-71726087 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 71726079 71727734 71726079 ID=MsaG038126
Chr7 mRNA 71726079 71727734 71726079 ID=MsaT038126.1;Parent=MsaG038126
Chr7 exon 71726079 71727734 71726079 ID=MsaT038126.1.exon1;Parent=MsaT038126.1
Chr7 CDS 71726079 71727734 71726079 ID=cds.MsaT038126.1;Parent=MsaT038126.1
Gene Sequence

>MsaT038126.1

ATGGTTGACCATGTTGATGACTATGATCCATATGGCATCATCATGGATGACCATGTTGATGATGACTATGTTCCATATGGCATCATCATGGATGATCATGTTGAATATGATTATGAATTCAATACTCTATTAAGCACTTCAGAGAATAGTACTCTCTCTGAAATCTCCATATTCACCCATAATCATATCCAATTTCCAATTGATGAAGAAACCTTAGAACTTCCATCTCTAATGGAATTAGATTCTTTTGATTCCATTTTGAGTCCCCAAATTGGTAATATTCATGAACAAGAATATTACCAAGAAGAAAGTGAAGGGAGTTTCCCTTCACAAAATTTTCCACATAACCTCGAAGGGTATAGTTCAAATAACCTCGGAGACGGTTGTAAAATGGCCGCCAGTGCCACTTATGATCATTTCCCTTTACAAAATTCTCCCTGTGATGCATGGAGTCCAACACTTTCAATGATATCAGATTTTTCATCAATTCAACAATCACTTACTTTGCCACAAGAAAATATGGAAATTGAAAACCAAGTGAGTCTTCCACACTTGATGGAAGCACATGGTGAAGCCTTGGAGAAAGGACAAAAAGCACTAGCAGAAGTTAATTTGAAGTGTATAAGCCAAAAAGTTACCACTCCAATTGGTGACTCTCTTGAGACACTTGCATTTTATTTGGCTCAAGAAGTGACAAATCATGGAGAATACCTCAAAGGCGAGGCATACAAGAATTTTCAGGCTGCTTTTAAGGTATTTTATCAAGGAAATTTGGTTGGGAAAATTGCTCATTTTTCAGCTATTTCATCAATTCTTGAAGCTGCTATGTTAGAAGATTGTGATGAAATTCACATAATTGATTATTGTTTTGGAAATGGTGTTCAATGGCCTTTTCTATTGGAGACTGTTTCAAAAATGAATAAAAAATTGAAATTGACATCAATTAAATGGAGTGATGAAAATTCTGCATCTGTTTGGAATTTCGAGGATACCAAAAGGGAACTTTATGAGTATGCTAAATCATGTGGTTTGAAATTGAAGGTAGAGGAAAAGGAATTGGAAGAATTGATTAGTGAGATCAAAATAAAGAACGAAAAGGGCGGAAAGAAAGTGTTTTTGGCTTTCAATTTGATGACCGGTCTTCCTCATATGGGAATGGTTAGAAGTAGAAGAAAACATGCTTATGAATGTTTGAAGGTAGCCGAGGATTTGATCAAGAACTATGGTAGCAAGGGAATTATTACTTTTGGTGATGGTGATGCATTTGAGAAACTGAAAAACAGTTTGAATTTCATGTCATTTTTTGAAGGGAATTTGGTGCATTACAAGGCTTTGTTGGAATCAATTCAATCACAATTTTCAGAAAATTTCTCAGAAGCAAGAATTGCATGTGAAATATTGTTTGTGGCACCTTGTATATCTTCTCTTGATTGGTTGCAAACATGGGAAGAGATGAAAAGTGATGGCTATCATCATAAAGGTGAGATTAGCTTAGAATGTGGAAGATTGAGCAAAAATGTTTTGATGGAAGTCAGAGAAATGTTGAGAGGAAGTGATAGTTCATATCAAGCAAGAATTGAAGGAGAAAATGAGAATCAACTTGTTTTGGAATGGAAAGGAAGTCAACTGTTAAGATTTTCTATTTGGAAAAATTGA
Protein sequence

>MsaT038126.1

MVDHVDDYDPYGIIMDDHVDDDYVPYGIIMDDHVEYDYEFNTLLSTSENSTLSEISIFTHNHIQFPIDEETLELPSLMELDSFDSILSPQIGNIHEQEYYQEESEGSFPSQNFPHNLEGYSSNNLGDGCKMAASATYDHFPLQNSPCDAWSPTLSMISDFSSIQQSLTLPQENMEIENQVSLPHLMEAHGEALEKGQKALAEVNLKCISQKVTTPIGDSLETLAFYLAQEVTNHGEYLKGEAYKNFQAAFKVFYQGNLVGKIAHFSAISSILEAAMLEDCDEIHIIDYCFGNGVQWPFLLETVSKMNKKLKLTSIKWSDENSASVWNFEDTKRELYEYAKSCGLKLKVEEKELEELISEIKIKNEKGGKKVFLAFNLMTGLPHMGMVRSRRKHAYECLKVAEDLIKNYGSKGIITFGDGDAFEKLKNSLNFMSFFEGNLVHYKALLESIQSQFSENFSEARIACEILFVAPCISSLDWLQTWEEMKSDGYHHKGEISLECGRLSKNVLMEVREMLRGSDSSYQARIEGENENQLVLEWKGSQLLRFSIWKN*