AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG001555


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001555 MtrunA17_Chr1g0164761 88.793 580 47 1 1 580 1 562 0.0 1073
MsaG001555 MtrunA17_Chr1g0164731 78.322 572 96 3 2 571 39 584 0.0 901
MsaG001555 MtrunA17_Chr5g0410721 52.673 505 218 4 2 493 83 579 0.0 557
MsaG001555 MtrunA17_Chr3g0116441 37.466 363 185 9 8 346 18 362 3.22e-66 234
MsaG001555 MtrunA17_Chr8g0380981 31.455 550 290 14 4 476 39 578 2.72e-58 210
MsaG001555 MtrunA17_Chr7g0214951 80.000 120 6 2 181 299 99 201 1.09e-57 192
MsaG001555 MtrunA17_Chr1g0189211 30.667 525 278 13 6 454 148 662 1.67e-54 199
MsaG001555 MtrunA17_Chr1g0199511 44.681 188 100 1 152 339 291 474 1.47e-52 194
MsaG001555 MtrunA17_Chr5g0397501 40.484 289 135 9 88 354 303 576 2.12e-51 191
MsaG001555 MtrunA17_Chr2g0303101 34.509 397 222 14 134 502 232 618 3.05e-48 181
MsaG001555 MtrunA17_Chr7g0214941 75.676 74 18 0 468 541 1 74 1.12e-29 111
MsaG001555 MtrunA17_Chr7g0261401 31.447 318 188 10 156 455 338 643 2.81e-29 123
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001555 AT5G46910.1 54.105 475 215 3 7 479 102 575 0.0 546
MsaG001555 AT5G46910.2 54.701 468 210 2 7 473 102 568 0.0 546
MsaG001555 AT2G34880.1 31.203 532 286 14 7 470 60 579 4.82e-59 211
MsaG001555 AT3G48430.1 34.584 373 194 9 8 339 20 383 6.42e-59 213
MsaG001555 AT1G63490.1 43.939 264 122 6 94 340 53 307 1.40e-57 209
MsaG001555 AT1G63490.4 43.939 264 122 6 94 340 306 560 1.99e-57 209
MsaG001555 AT1G63490.2 43.939 264 122 6 94 340 306 560 2.07e-57 209
MsaG001555 AT1G30810.3 29.444 540 290 15 4 466 55 580 2.15e-57 206
MsaG001555 AT1G30810.2 29.444 540 290 15 4 466 55 580 2.15e-57 206
MsaG001555 AT1G30810.1 29.444 540 290 15 4 466 55 580 2.15e-57 206
MsaG001555 AT4G20400.1 27.074 639 360 17 4 562 52 664 8.47e-56 203
MsaG001555 AT4G20400.2 27.113 627 351 17 16 562 7 607 2.84e-52 192
MsaG001555 AT5G04240.1 46.277 188 97 1 152 339 259 442 6.51e-52 192
MsaG001555 AT1G08620.2 40.000 240 124 4 117 343 313 545 5.51e-45 172
MsaG001555 AT1G08620.4 40.000 240 124 4 117 343 313 545 5.51e-45 172
MsaG001555 AT1G08620.1 40.000 240 124 4 117 343 313 545 5.51e-45 172
MsaG001555 AT1G08620.3 40.000 240 124 4 117 343 327 559 5.55e-45 172
MsaG001555 AT2G38950.1 25.198 631 365 20 2 550 102 707 1.22e-34 139
MsaG001555 AT1G63490.3 55.172 87 39 0 254 340 15 101 4.45e-25 110

Find 84 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACACAATTGTACAGCCTCTT+AGG 0.195974 1:+22292664 MsaT001555.1:CDS
TGTTCTGATGGATAATAAAT+TGG 0.204032 1:-22292114 None:intergenic
TTTCACATACCTTGTGTTCT+TGG 0.206416 1:-22294982 None:intergenic
GATGCATTCATTTATGTTAT+AGG 0.249252 1:-22294960 None:intergenic
TTCTTTACCGCAAAATCTAT+TGG 0.253886 1:-22292876 None:intergenic
GCTCCTGAGGCTTCTAAATA+TGG 0.264118 1:+22292174 MsaT001555.1:CDS
TGTCTTAACGGAAGAGAAAA+AGG 0.267528 1:+22292629 MsaT001555.1:CDS
GAGAAAGGAACAGTTGAATA+TGG 0.277961 1:+22292953 MsaT001555.1:CDS
TCCTGCAGTATCTTCCCTTT+TGG 0.292966 1:+22295395 MsaT001555.1:CDS
AATCCAGCATGATATGAATT+AGG 0.298533 1:-22293766 None:intergenic
AGTTCCTCATATGGAATTAT+AGG 0.316333 1:-22294424 None:intergenic
TTACTATGGAAAAGGCAAAT+TGG 0.326117 1:-22294706 None:intergenic
ATAAAGGACTCGTTGTCTTT+TGG 0.343992 1:-22295334 None:intergenic
TTACAAAGAAGTTCCTCATA+TGG 0.344918 1:-22294433 None:intergenic
GCTGGATCCGACGTGTCTTC+AGG 0.355814 1:-22294508 None:intergenic
AGCTCTTCAAATACATCATT+AGG 0.370354 1:+22294610 MsaT001555.1:CDS
TGACATGCAGCCTCTGCAAT+AGG 0.375602 1:+22294638 MsaT001555.1:CDS
AACAAGCAATTTCAATTTGA+AGG 0.380018 1:+22293027 MsaT001555.1:CDS
TAAACTTTGCTATTGGTGAT+TGG 0.380389 1:+22294350 MsaT001555.1:CDS
GACAAAAGAAGCAGGATTAG+AGG 0.392437 1:-22292610 None:intergenic
TTGGTGATTGGTTTCCACTT+GGG 0.409363 1:+22294362 MsaT001555.1:CDS
ACTGAAAGCAGAATAATAAC+TGG 0.419321 1:+22295154 MsaT001555.1:intron
TTTGATTTGAAAACCCTAAG+AGG 0.423006 1:-22292678 None:intergenic
CTGATCCTATGCTTTACATT+GGG 0.424948 1:+22293358 MsaT001555.1:CDS
TCAATTTGAAAAGACTGTCT+TGG 0.425142 1:+22293582 MsaT001555.1:CDS
CACAATTGTACAGCCTCTTA+GGG 0.435355 1:+22292665 MsaT001555.1:CDS
TGAGACATCGCTATCGCGCT+TGG 0.436728 1:+22294567 MsaT001555.1:CDS
CTTGTTCCAAGCTTATCATC+AGG 0.440827 1:-22293010 None:intergenic
GAAGCTGTAAACTTTGCTAT+TGG 0.453482 1:+22294343 MsaT001555.1:CDS
GCTACCTATAATTCCATATG+AGG 0.458631 1:+22294420 MsaT001555.1:CDS
TGGTGATTGGTTTCCACTTG+GGG 0.467102 1:+22294363 MsaT001555.1:CDS
TTTCTGTCAAGTAAACGTAA+TGG 0.468536 1:-22293236 None:intergenic
GAAATAATACATGGAGAGAA+AGG 0.474488 1:+22292938 MsaT001555.1:CDS
TGCTCAAACTCTTGTTCTGA+TGG 0.476367 1:-22292126 None:intergenic
GTGCCACAAAAGTGTTTATG+TGG 0.479205 1:+22294824 MsaT001555.1:CDS
TTACCATATTTAGAAGCCTC+AGG 0.481047 1:-22292177 None:intergenic
TTTCCTAATTCATATCATGC+TGG 0.481919 1:+22293763 MsaT001555.1:CDS
TCGAGGTCTTACTATGGAAA+AGG 0.482942 1:-22294714 None:intergenic
ACATAATGTGCCGGTTTACA+AGG 0.487938 1:+22293708 MsaT001555.1:CDS
TTGAAGATCACTATTTGTAC+AGG 0.488775 1:+22293409 MsaT001555.1:CDS
ATTGGTGATTGGTTTCCACT+TGG 0.491227 1:+22294361 MsaT001555.1:CDS
GCAGGATTAGAGGCAGTGAT+TGG 0.491790 1:-22292600 None:intergenic
ATTTGAAGCTCTTGCAAACA+AGG 0.496352 1:+22292847 MsaT001555.1:CDS
GACATGCAGCCTCTGCAATA+GGG 0.498995 1:+22294639 MsaT001555.1:CDS
ATCATCAGGATCACTTGAAA+AGG 0.501772 1:-22292996 None:intergenic
AAGAAAGATAGTACAATAGC+TGG 0.506340 1:-22294526 None:intergenic
TACAACTCCTCAAAAGATAG+AGG 0.507371 1:+22294472 MsaT001555.1:CDS
GGTGGAAATAAAACTTGGTA+TGG 0.514584 1:+22293538 MsaT001555.1:CDS
ACTGATCCTATGCTTTACAT+TGG 0.515442 1:+22293357 MsaT001555.1:CDS
AGTGATCCTGATGATAAGCT+TGG 0.516084 1:+22293004 MsaT001555.1:CDS
TTAACAGAACATGGAGAGAA+TGG 0.517335 1:+22293628 MsaT001555.1:CDS
TGCTATTCAGTATGTTTGCA+TGG 0.518171 1:+22293382 MsaT001555.1:CDS
AATTGAGAGGCAGCAGAGCT+AGG 0.520627 1:-22293565 None:intergenic
TTACAAGGCGATGCAAAAGC+CGG 0.522105 1:+22293723 MsaT001555.1:CDS
TCCGTTAAGACAAAAGAAGC+AGG 0.523048 1:-22292618 None:intergenic
ACTCAGGTGGAAATAAAACT+TGG 0.530514 1:+22293533 MsaT001555.1:CDS
TTATGTTCTAACAAGACATC+AGG 0.538881 1:-22293691 None:intergenic
AGAAGAACTGTTAACTCGCT+AGG 0.543521 1:+22295195 MsaT001555.1:CDS
TATGCAGAAAATTGCTCCTG+AGG 0.544690 1:+22292161 MsaT001555.1:CDS
CTTGTTAGAACATAATGTGC+CGG 0.547471 1:+22293699 MsaT001555.1:CDS
CAAGACATCAGGAGAGAACA+TGG 0.563327 1:-22293680 None:intergenic
TACAAGGCGATGCAAAAGCC+GGG 0.563332 1:+22293724 MsaT001555.1:CDS
ATAAATTATCATCACTCAGG+TGG 0.565750 1:+22293520 MsaT001555.1:CDS
AATGGAGACTGTGGCAGCCG+CGG 0.576119 1:-22293218 None:intergenic
ATGGAAAAGGCAAATTGGAT+CGG 0.581592 1:-22294701 None:intergenic
AAGGTGATGACAAACTCTCC+CGG 0.582876 1:-22293742 None:intergenic
TTCTGGCATGAAATAATACA+TGG 0.588144 1:+22292929 MsaT001555.1:CDS
GCCAAAAGGGAAGATACTGC+AGG 0.591239 1:-22295396 None:intergenic
AGTATAAATTATCATCACTC+AGG 0.598943 1:+22293517 MsaT001555.1:intron
AACAAAATCTTAACAGAACA+TGG 0.599486 1:+22293619 MsaT001555.1:CDS
TCACTAGCTGCAGCCCCAAG+TGG 0.606035 1:-22294376 None:intergenic
AGCATCCCAATGTAAAGCAT+AGG 0.618659 1:-22293363 None:intergenic
TATCATGCTGGATTTAGTCA+CGG 0.625895 1:+22293775 MsaT001555.1:CDS
GAGAACATACTGTATTCAAG+AGG 0.632379 1:+22294849 MsaT001555.1:CDS
AGCATGATATGAATTAGGAA+AGG 0.636839 1:-22293761 None:intergenic
TGCCACAAAAGTGTTTATGT+GGG 0.637266 1:+22294825 MsaT001555.1:CDS
TGAATATGGAGTCAATGTTG+AGG 0.637328 1:+22292967 MsaT001555.1:CDS
GCAGAATAATAACTGGCATG+AGG 0.639560 1:+22295161 MsaT001555.1:intron
ATTCAAGAGGAATGACATGT+CGG 0.643125 1:+22294862 MsaT001555.1:CDS
CATAACAATCCCTATTGCAG+AGG 0.648673 1:-22294648 None:intergenic
TGAGAAAACATGAATCAGAA+CGG 0.651996 1:+22295361 MsaT001555.1:CDS
TGAATGCATCCAAGAACACA+AGG 0.658928 1:+22294973 MsaT001555.1:CDS
AGTAAACGTAATGGAGACTG+TGG 0.682153 1:-22293227 None:intergenic
AATCAAACCTGAAGACACGT+CGG 0.715406 1:+22294501 MsaT001555.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 22292090 22295440 22292090 ID=MsaG001555
Chr1 mRNA 22292090 22295440 22292090 ID=MsaT001555.1;Parent=MsaG001555
Chr1 exon 22292090 22292195 22292090 ID=MsaT001555.1.exon1;Parent=MsaT001555.1
Chr1 CDS 22292090 22292195 22292090 ID=cds.MsaT001555.1;Parent=MsaT001555.1
Chr1 exon 22292580 22292736 22292580 ID=MsaT001555.1.exon2;Parent=MsaT001555.1
Chr1 CDS 22292580 22292736 22292580 ID=cds.MsaT001555.1;Parent=MsaT001555.1
Chr1 exon 22292829 22293048 22292829 ID=MsaT001555.1.exon3;Parent=MsaT001555.1
Chr1 CDS 22292829 22293048 22292829 ID=cds.MsaT001555.1;Parent=MsaT001555.1
Chr1 exon 22293212 22293265 22293212 ID=MsaT001555.1.exon4;Parent=MsaT001555.1
Chr1 CDS 22293212 22293265 22293212 ID=cds.MsaT001555.1;Parent=MsaT001555.1
Chr1 exon 22293351 22293430 22293351 ID=MsaT001555.1.exon5;Parent=MsaT001555.1
Chr1 CDS 22293351 22293430 22293351 ID=cds.MsaT001555.1;Parent=MsaT001555.1
Chr1 exon 22293519 22293796 22293519 ID=MsaT001555.1.exon6;Parent=MsaT001555.1
Chr1 CDS 22293519 22293796 22293519 ID=cds.MsaT001555.1;Parent=MsaT001555.1
Chr1 exon 22294329 22294724 22294329 ID=MsaT001555.1.exon7;Parent=MsaT001555.1
Chr1 CDS 22294329 22294724 22294329 ID=cds.MsaT001555.1;Parent=MsaT001555.1
Chr1 exon 22294819 22294994 22294819 ID=MsaT001555.1.exon8;Parent=MsaT001555.1
Chr1 CDS 22294819 22294994 22294819 ID=cds.MsaT001555.1;Parent=MsaT001555.1
Chr1 exon 22295165 22295440 22295165 ID=MsaT001555.1.exon9;Parent=MsaT001555.1
Chr1 CDS 22295165 22295440 22295165 ID=cds.MsaT001555.1;Parent=MsaT001555.1
Gene Sequence

>MsaT001555.1

ATGACTAACATTACTCAAGAATGTCCAATTTATTATCCATCAGAACAAGAGTTTGAGCATCCTTTAGTTTATATGCAGAAAATTGCTCCTGAGGCTTCTAAATATGGTATATGCAAAATTGTTTCACCAATCACTGCCTCTAATCCTGCTTCTTTTGTCTTAACGGAAGAGAAAAAGGATTTTAAGTTTAACACAATTGTACAGCCTCTTAGGGTTTTCAAATCAAATGAGATGGATAAAATAACTTTTTCTAAGAGAAGAAGAAAATATACATATCATGAATTTGAAGCTCTTGCAAACAAGGCGTTTTCCAATAGATTTTGCGGTAAAGAAGATCTCTCTTGTTTAGATATCGAAAAAGCGTTCTGGCATGAAATAATACATGGAGAGAAAGGAACAGTTGAATATGGAGTCAATGTTGAGGAAAGCGCCTTTTCAAGTGATCCTGATGATAAGCTTGGAACAAGCAATTTCAATTTGAAGAATTTGCCGCGGCTGCCACAGTCTCCATTACGTTTACTTGACAGAAAAATTCCAGGATTAACTGATCCTATGCTTTACATTGGGATGCTATTCAGTATGTTTGCATGGCATGTTGAAGATCACTATTTGTACAGTATAAATTATCATCACTCAGGTGGAAATAAAACTTGGTATGGCGTGCCTAGCTCTGCTGCCTCTCAATTTGAAAAGACTGTCTTGGATCATGTGTATTGCAACAAAATCTTAACAGAACATGGAGAGAATGGTGCATTCCAATTTCTTGCACAAAAAACAACCATGTTCTCTCCTGATGTCTTGTTAGAACATAATGTGCCGGTTTACAAGGCGATGCAAAAGCCGGGAGAGTTTGTCATCACCTTTCCTAATTCATATCATGCTGGATTTAGTCACGGTTTTAACTGTGGAGAAGCTGTAAACTTTGCTATTGGTGATTGGTTTCCACTTGGGGCTGCAGCTAGTGAACGTTATTCACATCTCAAAATGCTACCTATAATTCCATATGAGGAACTTCTTTGTAAAGAAGCATTGCTTATCTACAACTCCTCAAAAGATAGAGGTTACAAAATCAAACCTGAAGACACGTCGGATCCAGCTATTGTACTATCTTTCTTGCATCTTATTCAATTTTATGAGACATCGCTATCGCGCTTGGACAGTTCGAAAAAGCTGTCAAGCTCTTCAAATACATCATTAGGTTCTGTGACATGCAGCCTCTGCAATAGGGATTGTTATGTAGCTTTCTTGTTGTGCAAGAAATGCTATTCCGATCCAATTTGCCTTTTCCATAACATAGTGCCACAAAAGTGTTTATGTGGGAGAGAACATACTGTATTCAAGAGGAATGACATGTCGGAACTCGAAGATGCTGCCAAAAGTTTTCAACAGGAAAAAGAATGCATCGACGCATTATCTGTAACTAATATATTCTCCTATAACATAAATGAATGCATCCAAGAACACAAGAATAATAACTGGCATGAGGAAAAAAGTGCTAGAAGAACTGTTAACTCGCTAGGCGCAACATCTAAAATGAAAACAAGAGTTGCGAACAACGTCAAGCACACTGTTGAAAATAATCAAAAGAAGACAAAGAATCGACGTAGAAACAATGCGTCTCCATCAGTGATGAGTACCAAAAGACAACGAGTCCTTTATAACTTGAGAAAACATGAATCAGAACGGATTATCGAAGTTCCTGCAGTATCTTCCCTTTTGGCGACATCTGAAAAATCAAAGTAA

Protein sequence

>MsaT001555.1

MTNITQECPIYYPSEQEFEHPLVYMQKIAPEASKYGICKIVSPITASNPASFVLTEEKKDFKFNTIVQPLRVFKSNEMDKITFSKRRRKYTYHEFEALANKAFSNRFCGKEDLSCLDIEKAFWHEIIHGEKGTVEYGVNVEESAFSSDPDDKLGTSNFNLKNLPRLPQSPLRLLDRKIPGLTDPMLYIGMLFSMFAWHVEDHYLYSINYHHSGGNKTWYGVPSSAASQFEKTVLDHVYCNKILTEHGENGAFQFLAQKTTMFSPDVLLEHNVPVYKAMQKPGEFVITFPNSYHAGFSHGFNCGEAVNFAIGDWFPLGAAASERYSHLKMLPIIPYEELLCKEALLIYNSSKDRGYKIKPEDTSDPAIVLSFLHLIQFYETSLSRLDSSKKLSSSSNTSLGSVTCSLCNRDCYVAFLLCKKCYSDPICLFHNIVPQKCLCGREHTVFKRNDMSELEDAAKSFQQEKECIDALSVTNIFSYNINECIQEHKNNNWHEEKSARRTVNSLGATSKMKTRVANNVKHTVENNQKKTKNRRRNNASPSVMSTKRQRVLYNLRKHESERIIEVPAVSSLLATSEKSK*