AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG009641

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009641 MtrunA17_Chr2g0315591 93.274 223 8 4 1 220 7 225 1.06e-136 382
MsaG009641 MtrunA17_Chr4g0009461 69.091 55 10 2 39 93 51 98 2.56e-20 87.0
MsaG009641 MtrunA17_Chr5g0400571 38.947 190 75 8 45 214 77 245 2.74e-20 85.9
MsaG009641 MtrunA17_Chr3g0112181 73.333 45 11 1 38 82 46 89 2.79e-19 83.6
MsaG009641 MtrunA17_Chr5g0435711 66.667 48 15 1 38 85 38 84 3.61e-18 80.1
MsaG009641 MtrunA17_Chr1g0184381 81.579 38 7 0 45 82 32 69 5.45e-18 78.6
MsaG009641 MtrunA17_Chr4g0032111 34.127 126 73 2 47 169 20 138 4.51e-17 75.9
MsaG009641 MtrunA17_Chr7g0239441 57.143 49 21 0 44 92 33 81 7.32e-14 66.6
MsaG009641 MtrunA17_Chr1g0184331 47.541 61 26 1 26 86 22 76 9.74e-11 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009641 AT3G23130.1 37.379 206 88 8 24 214 23 202 7.61e-26 100
MsaG009641 AT2G42410.2 33.493 209 109 6 24 214 16 212 3.26e-22 90.9
MsaG009641 AT2G42410.1 33.493 209 109 6 24 214 16 212 3.26e-22 90.9
MsaG009641 AT2G42410.3 33.654 208 108 6 25 214 43 238 4.15e-22 90.9
MsaG009641 AT5G06070.1 57.500 80 21 2 32 98 37 116 1.13e-21 89.7
MsaG009641 AT2G37740.1 63.077 65 22 1 18 82 9 71 1.69e-20 87.8
MsaG009641 AT4G17810.2 49.383 81 41 0 45 125 41 121 5.47e-19 81.3
MsaG009641 AT4G17810.1 49.383 81 41 0 45 125 41 121 1.72e-18 80.5
MsaG009641 AT3G09290.1 76.471 34 8 0 48 81 33 66 1.65e-13 66.6
MsaG009641 AT3G53820.1 53.061 49 20 1 37 82 5 53 1.22e-12 63.5

Find 46 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATGAATGTGAGAATAAATT+AGG 0.181994 2:+62703457 None:intergenic
TAGTGATAGTAGGGTTATTA+AGG 0.213646 2:+62703485 None:intergenic
TACTACTACTTATTATAATT+AGG 0.308050 2:-62703146 None:intergenic
TTAAGGATGGATTTGGAGAT+AGG 0.323598 2:-62703214 MsaT009641.1:CDS
TCTCAAAGTGATAATAATAA+TGG 0.324416 2:-62703718 MsaT009641.1:CDS
AAGGGTAATGTGCAAGTAAT+AGG 0.332503 2:+62703388 None:intergenic
TTAGGGTTAGTAGTGATAGT+AGG 0.333789 2:+62703475 None:intergenic
CTTGGATCTTGAGCTTCGTT+TGG 0.338483 2:-62703170 MsaT009641.1:CDS
GTCACATGAATGTTCATAGA+AGG 0.359608 2:-62703588 MsaT009641.1:CDS
CAAGTTGAGGTTCATGAGTT+GGG 0.363995 2:+62703536 None:intergenic
GAGGTCTTTGTGCTCAAAGT+AGG 0.390132 2:+62703304 None:intergenic
TTGGATCTTGAGCTTCGTTT+GGG 0.406516 2:-62703169 MsaT009641.1:CDS
ATGAATGTGAGAATAAATTA+GGG 0.439290 2:+62703458 None:intergenic
TAGGGTTAGTAGTGATAGTA+GGG 0.449276 2:+62703476 None:intergenic
ACCAGGAGATTATGATAACT+TGG 0.460167 2:-62703188 MsaT009641.1:CDS
AATATGAACACAAGCTTGAA+AGG 0.476718 2:-62703790 MsaT009641.1:CDS
AGGTCTTTGTGCTCAAAGTA+GGG 0.478191 2:+62703305 None:intergenic
TTCAAATCAGCTCAAGCACT+TGG 0.481508 2:-62703613 MsaT009641.1:CDS
TCAAGTTGAGGTTCATGAGT+TGG 0.488506 2:+62703535 None:intergenic
GTGTATGATCTTGGTGGCCA+TGG 0.499774 2:+62703658 None:intergenic
AATAGATATGTTGTTGTGGA+TGG 0.501785 2:-62703340 MsaT009641.1:CDS
GACCTCAGAGAAATCAAAGA+TGG 0.508422 2:-62703287 MsaT009641.1:CDS
AAGCTACATGTGTATGATCT+TGG 0.515500 2:+62703649 None:intergenic
CATGAACCTCAACTTGATCA+AGG 0.521250 2:-62703529 MsaT009641.1:CDS
TCAGAAGATTACATGATGAA+TGG 0.523539 2:-62703688 MsaT009641.1:CDS
ATCTATTAAACTCAGAAGGA+GGG 0.533665 2:+62703356 None:intergenic
CTTGAGAGTTGTTGCTGAAG+AGG 0.539897 2:+62703411 None:intergenic
AAGTTGAGGTTCATGAGTTG+GGG 0.540091 2:+62703537 None:intergenic
AAATCAGCTCAAGCACTTGG+AGG 0.547633 2:-62703610 MsaT009641.1:CDS
TCCAAGTTATCATAATCTCC+TGG 0.558717 2:+62703187 None:intergenic
AGAAGGAGGGGAAACAAACA+AGG 0.562334 2:+62703369 None:intergenic
TCTATTAAACTCAGAAGGAG+GGG 0.568419 2:+62703357 None:intergenic
TATCTATTAAACTCAGAAGG+AGG 0.568507 2:+62703355 None:intergenic
GATTTGGAGATAGGATTACC+AGG 0.569217 2:-62703205 MsaT009641.1:CDS
TGATGAATGGTTGTTATCCA+TGG 0.592785 2:-62703675 MsaT009641.1:CDS
TTCATAGAAGGGATAGAGCA+AGG 0.597565 2:-62703576 MsaT009641.1:CDS
TCACATGAATGTTCATAGAA+GGG 0.603355 2:-62703587 MsaT009641.1:CDS
GAAGAACCTTGATCAAGTTG+AGG 0.604626 2:+62703523 None:intergenic
ATCCATCTTTGATTTCTCTG+AGG 0.605445 2:+62703285 None:intergenic
TCAGAGAAATCAAAGATGGA+TGG 0.606828 2:-62703283 MsaT009641.1:CDS
ACATATCTATTAAACTCAGA+AGG 0.608200 2:+62703352 None:intergenic
GTTTAATAGATATGTTGTTG+TGG 0.616672 2:-62703344 MsaT009641.1:CDS
CTACATGTGTATGATCTTGG+TGG 0.625534 2:+62703652 None:intergenic
ATGTGAAGATGATTGTAACA+TGG 0.679232 2:-62703254 MsaT009641.1:CDS
AGTTGAGGTTCATGAGTTGG+GGG 0.715344 2:+62703538 None:intergenic
GAAGGAGGGGAAACAAACAA+GGG 0.743615 2:+62703370 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 62703147 62703809 62703147 ID=MsaG009641
Chr2 mRNA 62703147 62703809 62703147 ID=MsaT009641.1;Parent=MsaG009641
Chr2 exon 62703147 62703809 62703147 ID=MsaT009641.1.exon1;Parent=MsaT009641.1
Chr2 CDS 62703147 62703809 62703147 ID=cds.MsaT009641.1;Parent=MsaT009641.1
Gene Sequence

>MsaT009641.1

ATGAACACAAGCTTGAAAGGCTATAATCACACTTATTACAACAGTCCAATAATCACCAACAAAAGTCATTCTCAAAGTGATAATAATAATGGATCATCATCAGAAGATTACATGATGAATGGTTGTTATCCATGGCCACCAAGATCATACACATGTAGCTTTTGCAGAAAAGAATTCAAATCAGCTCAAGCACTTGGAGGTCACATGAATGTTCATAGAAGGGATAGAGCAAGGCTTAGACAATCATCACCCCCAACTCATGAACCTCAACTTGATCAAGGTTCTTCTATGCTTAATCTTAACCTTAATAACCCTACTATCACTACTAACCCTAATTTATTCTCACATTCATCTTCATCTTCTTCATCATTATCATCCTCTTCAGCAACAACTCTCAAGCCTATTACTTGCACATTACCCTTGTTTGTTTCCCCTCCTTCTGAGTTTAATAGATATGTTGTTGTGGATGGTATTTTGTTGAACCCTACTTTGAGCACAAAGACCTCAGAGAAATCAAAGATGGATGGTTTTGAATGTGAAGATGATTGTAACATGGTGAAGAAAAGTGAGATTTTAAGGATGGATTTGGAGATAGGATTACCAGGAGATTATGATAACTTGGATCTTGAGCTTCGTTTGGGTACTACTACTTATTATAATTAG
Protein sequence

>MsaT009641.1

MNTSLKGYNHTYYNSPIITNKSHSQSDNNNGSSSEDYMMNGCYPWPPRSYTCSFCRKEFKSAQALGGHMNVHRRDRARLRQSSPPTHEPQLDQGSSMLNLNLNNPTITTNPNLFSHSSSSSSSLSSSSATTLKPITCTLPLFVSPPSEFNRYVVVDGILLNPTLSTKTSEKSKMDGFECEDDCNMVKKSEILRMDLEIGLPGDYDNLDLELRLGTTTYYN*