AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG004561

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004561 MtrunA17_Chr1g0198171 98.860 351 4 0 1 351 151 501 0.0 727
MsaG004561 MtrunA17_Chr7g0265831 44.538 238 103 8 1 232 152 366 2.65e-52 179
MsaG004561 MtrunA17_Chr1g0179191 40.726 248 114 9 1 248 168 382 2.74e-47 167
MsaG004561 MtrunA17_Chr1g0201941 30.827 266 138 9 4 229 96 355 1.26e-25 108
MsaG004561 MtrunA17_Chr1g0201911 25.833 360 202 11 4 322 94 429 1.86e-23 101
MsaG004561 MtrunA17_Chr6g0463941 61.538 52 20 0 4 55 94 145 2.03e-15 77.4
MsaG004561 MtrunA17_Chr2g0290511 27.193 228 116 8 153 338 114 333 2.76e-14 73.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004561 AT5G03680.1 38.418 354 169 9 1 327 156 487 1.16e-61 207
MsaG004561 AT3G10000.1 38.306 248 132 7 1 245 125 354 5.76e-40 147
MsaG004561 AT3G10000.2 37.500 240 129 7 9 245 123 344 3.82e-36 137
MsaG004561 AT1G76890.2 28.922 408 198 12 4 338 80 468 1.59e-32 128
MsaG004561 AT1G33240.3 60.000 65 21 2 4 68 101 160 1.13e-16 81.6
MsaG004561 AT1G33240.1 60.000 65 21 2 4 68 101 160 1.32e-16 81.6
MsaG004561 AT1G33240.2 60.000 65 21 2 4 68 62 121 2.76e-16 80.5
MsaG004561 AT1G76880.1 58.929 56 23 0 4 59 100 155 2.66e-14 74.3

Find 66 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTTGGCTCTTACTCTTATT+TGG 0.155961 1:+71048901 None:intergenic
TTGTTGTATCATTTGCTTCT+TGG 0.177243 1:+71048884 None:intergenic
TGCATTTCTTTCCACTTCTT+TGG 0.203428 1:+71049592 None:intergenic
AGGATAATGGCTGAGGAATT+TGG 0.204963 1:-71049618 None:intergenic
GAACATCAAGTAAGAGAAAA+AGG 0.239292 1:-71048772 MsaT004561.1:CDS
AGGTGAAAGGATGGTTTATA+TGG 0.259177 1:-71048719 MsaT004561.1:CDS
GATATTTGGATGATGGAGTT+TGG 0.262012 1:-71048750 MsaT004561.1:CDS
AAACACAAGGCCTTGGTGTT+TGG 0.270837 1:-71048611 MsaT004561.1:CDS
GAGCTGAGTGCAAGAAAATA+TGG 0.284773 1:-71048681 MsaT004561.1:CDS
AACACAAGGCCTTGGTGTTT+GGG 0.305639 1:-71048610 MsaT004561.1:CDS
TCTACTAGCTTTACCTTCCT+TGG 0.314459 1:+71049530 None:intergenic
TGGTTTATATGGGATTTAAT+AGG 0.331668 1:-71048708 MsaT004561.1:CDS
ATCAAGAAATACATGAACTT+TGG 0.336932 1:-71049008 MsaT004561.1:CDS
GGATAATGGCTGAGGAATTT+GGG 0.344397 1:-71049617 None:intergenic
ATATTTGGATGATGGAGTTT+GGG 0.376772 1:-71048749 MsaT004561.1:CDS
GATGGAGTTTGGGATGAAAT+AGG 0.383462 1:-71048739 MsaT004561.1:CDS
TCAAGAAATACATGAACTTT+GGG 0.384682 1:-71049007 MsaT004561.1:CDS
GTAGCAACAAAGGAAGCATT+AGG 0.385971 1:+71049411 None:intergenic
GAAGTTGTAAGAAAACATAT+TGG 0.406391 1:-71048940 MsaT004561.1:CDS
AAGTTGTAAGAAAACATATT+GGG 0.418479 1:-71048939 MsaT004561.1:CDS
TAGCAACAAAGGAAGCATTA+GGG 0.434533 1:+71049412 None:intergenic
GAGGCATGAGAGTTTGTGTT+TGG 0.435521 1:+71049453 None:intergenic
AGAAAGGGCAAAGTGGTCAT+AGG 0.438060 1:-71049206 MsaT004561.1:CDS
ATATTAGTATGTCTCTTAGA+AGG 0.438578 1:-71048654 MsaT004561.1:CDS
TATATGGGATTTAATAGGAA+TGG 0.452119 1:-71048703 MsaT004561.1:CDS
ATATTATCCACACTTTCAAA+AGG 0.458934 1:+71048850 None:intergenic
TCTTGGTTAATTGTGAAGGT+TGG 0.462279 1:+71049381 None:intergenic
TATTCATAGATGGACAGAAA+TGG 0.466542 1:-71048830 MsaT004561.1:CDS
TTTCAAACTTGATACAACTA+AGG 0.475487 1:-71048804 MsaT004561.1:CDS
ATTAACCAAGAAAATACTAA+TGG 0.483532 1:-71049369 MsaT004561.1:CDS
TTATTGAGACTCAAGATGCT+TGG 0.485535 1:-71049122 MsaT004561.1:CDS
ATGAAGTCGTCGAAGGAGAA+AGG 0.490837 1:-71049222 MsaT004561.1:CDS
GGTGAAAGGATGGTTTATAT+GGG 0.497182 1:-71048718 MsaT004561.1:CDS
GGATGAAATAGGTGAAAGGA+TGG 0.499715 1:-71048728 MsaT004561.1:CDS
GTGTGGATAATATTCATAGA+TGG 0.500320 1:-71048840 MsaT004561.1:CDS
CTTGTTTAGGATAATGGCTG+AGG 0.502416 1:-71049625 None:intergenic
ATAGGAGGGCAAGGAAAAGT+TGG 0.504848 1:-71049188 MsaT004561.1:CDS
TATTATCCACACTTTCAAAA+GGG 0.515340 1:+71048851 None:intergenic
TAGCATCAAAGGAAGAAGAA+AGG 0.522634 1:-71049056 MsaT004561.1:CDS
TGAGACTCAAGATGCTTGGA+TGG 0.522893 1:-71049118 MsaT004561.1:CDS
AGACAGCTTGAAGCAATATG+TGG 0.533898 1:-71049480 MsaT004561.1:CDS
TGAAGTCGTCGAAGGAGAAA+GGG 0.536001 1:-71049221 MsaT004561.1:CDS
TTAGACTTTGTGAATACTTG+TGG 0.538073 1:+71049322 None:intergenic
AGAACAAGAGATAGCATCAA+AGG 0.542656 1:-71049067 MsaT004561.1:CDS
GGAAGAGAAAAGAGTCAATG+AGG 0.550829 1:-71049035 MsaT004561.1:CDS
AAGGGCAAAGTGGTCATAGG+AGG 0.562963 1:-71049203 MsaT004561.1:CDS
GGTAAAGCTAGTAGACAAGA+TGG 0.568681 1:-71049522 MsaT004561.1:CDS
TGGAGTTTGAGTAGCAACAA+AGG 0.581390 1:+71049401 None:intergenic
GAATTTGGGTACCAAAGAAG+TGG 0.582190 1:-71049603 MsaT004561.1:CDS
AGGGCAAGGAAAAGTTGGAG+AGG 0.591096 1:-71049183 MsaT004561.1:CDS
AGCTGAGTGCAAGAAAATAT+GGG 0.595363 1:-71048680 MsaT004561.1:CDS
TTTGGGATGAAATAGGTGAA+AGG 0.600563 1:-71048732 MsaT004561.1:CDS
TATTACAAGAAGACCAAGGA+AGG 0.601931 1:-71049543 MsaT004561.1:CDS
AAGTTGGAGAGGTAAAGTTG+AGG 0.607935 1:-71049172 MsaT004561.1:CDS
AAAGTGGTCATAGGAGGGCA+AGG 0.623960 1:-71049197 MsaT004561.1:CDS
AGCAACAAAGGAAGCATTAG+GGG 0.629023 1:+71049413 None:intergenic
CTTAGAAGGACAGTGGACTG+TGG 0.637596 1:-71048640 MsaT004561.1:CDS
AAGAAGTGGAAAGAAATGCA+AGG 0.641850 1:-71049589 MsaT004561.1:CDS
AGGGCAAAGTGGTCATAGGA+GGG 0.643035 1:-71049202 MsaT004561.1:CDS
ACACACTATGAAGTCGTCGA+AGG 0.660577 1:-71049229 MsaT004561.1:CDS
TATGTCTCTTAGAAGGACAG+TGG 0.662720 1:-71048647 MsaT004561.1:CDS
AGCTTAAGTCCCAAACACCA+AGG 0.671681 1:+71048601 None:intergenic
AACTTGATACAACTAAGGAG+TGG 0.671997 1:-71048799 MsaT004561.1:CDS
TCGAAGGAGAAAGGGCAAAG+TGG 0.682624 1:-71049213 MsaT004561.1:CDS
CTCATCTGAAAACAACGACG+AGG 0.701415 1:-71049268 MsaT004561.1:CDS
CAAGTATTACAAGAAGACCA+AGG 0.709647 1:-71049547 MsaT004561.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 71048579 71049634 71048579 ID=MsaG004561
Chr1 mRNA 71048579 71049634 71048579 ID=MsaT004561.1;Parent=MsaG004561
Chr1 exon 71048579 71049634 71048579 ID=MsaT004561.1.exon1;Parent=MsaT004561.1
Chr1 CDS 71048579 71049634 71048579 ID=cds.MsaT004561.1;Parent=MsaT004561.1
Gene Sequence

>MsaT004561.1

ATGGCTGAGGAATTTGGGTACCAAAGAAGTGGAAAGAAATGCAAGGAAAAGTTTGAGAATTTGTACAAGTATTACAAGAAGACCAAGGAAGGTAAAGCTAGTAGACAAGATGGTAAGCACTATAGATTTTTCAGACAGCTTGAAGCAATATGTGGAGAACCAAACACAAACTCTCATGCCTCAACTTTAGACAAAATTACCCCTAATGCTTCCTTTGTTGCTACTCAAACTCCAACCTTCACAATTAACCAAGAAAATACTAATGGTGTTGATCACAATTTGATCAATAACCACAAGTATTCACAAAGTCTAAGTTTCTCGAACTCGTCTGAATTTGAGACATCCTCATCTGAAAACAACGACGAGGATCTCTCAGCTATTGCACACACTATGAAGTCGTCGAAGGAGAAAGGGCAAAGTGGTCATAGGAGGGCAAGGAAAAGTTGGAGAGGTAAAGTTGAGGAGATTGTAGATTCTCACATGAAAAATATTATTGAGACTCAAGATGCTTGGATGGAGAGAATGTTGAGTGTTGTTGAACAAAGAGAACAAGAGATAGCATCAAAGGAAGAAGAAAGGAAGAGAAAAGAGTCAATGAGGTTTGATCAAGAAATACATGAACTTTGGGCTAAAGAAAAAGCATGGGTTGAAGCAAGAGATTCTGCATTGTTAGAAGTTGTAAGAAAACATATTGGGATACAACTTGAAGCACCAAATAAGAGTAAGAGCCAAGAAGCAAATGATACAACAAATTATGAATACCCTTTTGAAAGTGTGGATAATATTCATAGATGGACAGAAATGGAAATTTCAAACTTGATACAACTAAGGAGTGGTTTTGAACATCAAGTAAGAGAAAAAGGATATTTGGATGATGGAGTTTGGGATGAAATAGGTGAAAGGATGGTTTATATGGGATTTAATAGGAATGGAGCTGAGTGCAAGAAAATATGGGATGATATTAGTATGTCTCTTAGAAGGACAGTGGACTGTGGAGTCAAAAACACAAGGCCTTGGTGTTTGGGACTTAAGCTGACAGATGATGACGACCTTTGA
Protein sequence

>MsaT004561.1

MAEEFGYQRSGKKCKEKFENLYKYYKKTKEGKASRQDGKHYRFFRQLEAICGEPNTNSHASTLDKITPNASFVATQTPTFTINQENTNGVDHNLINNHKYSQSLSFSNSSEFETSSSENNDEDLSAIAHTMKSSKEKGQSGHRRARKSWRGKVEEIVDSHMKNIIETQDAWMERMLSVVEQREQEIASKEEERKRKESMRFDQEIHELWAKEKAWVEARDSALLEVVRKHIGIQLEAPNKSKSQEANDTTNYEYPFESVDNIHRWTEMEISNLIQLRSGFEHQVREKGYLDDGVWDEIGERMVYMGFNRNGAECKKIWDDISMSLRRTVDCGVKNTRPWCLGLKLTDDDDL*