AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene059865


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene059865.t1 MTR_2g070420 95.455 66 3 0 1 66 307 372 3.96e-40 134
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene059865.t1 AT3G14420 81.967 61 11 0 1 61 287 347 1.38e-30 109
MS.gene059865.t1 AT3G14415 81.967 61 11 0 1 61 312 372 1.48e-30 109
MS.gene059865.t1 AT3G14420 81.967 61 11 0 1 61 306 366 1.50e-30 109
MS.gene059865.t1 AT3G14420 81.967 61 11 0 1 61 306 366 1.50e-30 109
MS.gene059865.t1 AT3G14415 81.967 61 11 0 1 61 306 366 1.50e-30 109
MS.gene059865.t1 AT3G14415 81.967 61 11 0 1 61 306 366 1.50e-30 109
MS.gene059865.t1 AT3G14420 81.967 61 11 0 1 61 306 366 1.53e-30 109
MS.gene059865.t1 AT3G14420 81.967 61 11 0 1 61 299 359 1.80e-30 109
MS.gene059865.t1 AT3G14420 81.967 61 11 0 1 61 305 365 2.00e-30 109
MS.gene059865.t1 AT4G18360 78.947 57 12 0 1 57 306 362 1.87e-27 101
MS.gene059865.t1 AT4G18360 78.947 57 12 0 1 57 306 362 1.87e-27 101
MS.gene059865.t1 AT3G14130 61.224 49 19 0 1 49 196 244 7.41e-18 74.3
MS.gene059865.t1 AT3G14150 61.224 49 19 0 1 49 196 244 8.05e-18 74.3
MS.gene059865.t1 AT3G14150 61.224 49 19 0 1 49 196 244 8.05e-18 74.3
MS.gene059865.t1 AT3G14150 61.224 49 19 0 1 49 218 266 1.15e-17 73.9
MS.gene059865.t1 AT3G14150 61.224 49 19 0 1 49 218 266 1.15e-17 73.9
MS.gene059865.t1 AT3G14150 61.224 49 19 0 1 49 218 266 1.15e-17 73.9
MS.gene059865.t1 AT3G14130 61.224 49 19 0 1 49 260 308 1.38e-17 74.3
MS.gene059865.t1 AT3G14130 61.224 49 19 0 1 49 304 352 1.56e-17 74.3
MS.gene059865.t1 AT3G14130 61.224 49 19 0 1 49 304 352 1.56e-17 74.3
MS.gene059865.t1 AT3G14150 61.224 49 19 0 1 49 304 352 1.69e-17 74.3
MS.gene059865.t1 AT3G14150 61.224 49 19 0 1 49 304 352 1.69e-17 74.3

Find 19 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGACCACATCGTTGCTGATT+GGG 0.421642 2.2:+15440442 MS.gene059865:CDS
ACTCATCACGTAACATTTGA+AGG 0.447093 2.2:-15440367 None:intergenic
GTGACCACATCGTTGCTGAT+TGG 0.449542 2.2:+15440441 MS.gene059865:CDS
GTGTATTCTCTGGCTGCTGA+TGG 0.460684 2.2:+15440323 MS.gene059865:CDS
CTGGCTGCTGATGGAGAAGC+TGG 0.478038 2.2:+15440332 MS.gene059865:CDS
GAGTTAACAATGGCTTTAAG+TGG 0.494236 2.2:+15440392 MS.gene059865:CDS
ACGCCCTGTGGTGTATTCTC+TGG 0.532490 2.2:+15440313 MS.gene059865:CDS
CATAATCTTGGTATGGCACG+AGG 0.535981 2.2:-15440482 None:intergenic
TGGAGAAGCTGGTGTAAGAA+AGG 0.545364 2.2:+15440343 MS.gene059865:CDS
AAGTGGATGCCGCTCACTCA+AGG 0.555841 2.2:+15440409 MS.gene059865:CDS
GAGTGATTTCCTTGAGTGAG+CGG 0.593581 2.2:-15440418 None:intergenic
GCAGCCAGAGAATACACCAC+AGG 0.615884 2.2:-15440317 None:intergenic
TGATGAGTTTGAGTTAACAA+TGG 0.619751 2.2:+15440382 MS.gene059865:CDS
CAGCCAGAGAATACACCACA+GGG 0.658781 2.2:-15440316 None:intergenic
TGTCCCAATCAGCAACGATG+TGG 0.667462 2.2:-15440445 None:intergenic
TGTCTAGATTGGACGCCCTG+TGG 0.692710 2.2:+15440301 MS.gene059865:intron
GGCACGAGGATTAACACGAG+GGG 0.715789 2.2:-15440468 None:intergenic
TGGCACGAGGATTAACACGA+GGG 0.726021 2.2:-15440469 None:intergenic
ATGGCACGAGGATTAACACG+AGG 0.730624 2.2:-15440470 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! GTTATAACGATAAATTATTT+TGG - chr2.2:15440239-15440258 None:intergenic 15.0%
!!! TAATTTGTTCGTTAAGATAA+CGG - chr2.2:15440276-15440295 None:intergenic 20.0%
! AAATTATGCAATGTCTAGAT+TGG + chr2.2:15440290-15440309 MS.gene059865:intron 25.0%
! CACTTGTCTTCTATAATATA+TGG + chr2.2:15440194-15440213 MS.gene059865:intron 25.0%
! TCAAACGAATTTGATAAAGT+TGG - chr2.2:15439974-15439993 None:intergenic 25.0%
! TTGTCTTCTATAATATATGG+AGG + chr2.2:15440197-15440216 MS.gene059865:intron 25.0%
!! CATTGTGTTTAAGATTAACA+GGG - chr2.2:15440072-15440091 None:intergenic 25.0%
!!! TTTGATAAAGTTGGCTTTTA+TGG - chr2.2:15439965-15439984 None:intergenic 25.0%
CCTGTTAATCTTAAACACAA+TGG + chr2.2:15440070-15440089 MS.gene059865:intron 30.0%
CTGAATTCATAATTCTTGAG+TGG + chr2.2:15440030-15440049 MS.gene059865:intron 30.0%
TGTCGTAATAAAAGTTTGGT+CGG - chr2.2:15440176-15440195 None:intergenic 30.0%
! CAAGTGTCGTAATAAAAGTT+TGG - chr2.2:15440180-15440199 None:intergenic 30.0%
! CCATTGTGTTTAAGATTAAC+AGG - chr2.2:15440073-15440092 None:intergenic 30.0%
! TGATGAGTTTGAGTTAACAA+TGG + chr2.2:15440382-15440401 MS.gene059865:CDS 30.0%
ACTCATCACGTAACATTTGA+AGG - chr2.2:15440370-15440389 None:intergenic 35.0%
CATTCATGTAGTTAACGGTT+TGG + chr2.2:15439902-15439921 MS.gene059865:intron 35.0%
GTCGTAATAAAAGTTTGGTC+GGG - chr2.2:15440175-15440194 None:intergenic 35.0%
! TAAGATAACGGCAGTACTAA+TGG - chr2.2:15440264-15440283 None:intergenic 35.0%
!! GAGTTAACAATGGCTTTAAG+TGG + chr2.2:15440392-15440411 MS.gene059865:CDS 35.0%
CGACGCATTCATGTAGTTAA+CGG + chr2.2:15439897-15439916 MS.gene059865:intron 40.0%
GTAATAAAAGTTTGGTCGGG+AGG - chr2.2:15440172-15440191 None:intergenic 40.0%
CATAATCTTGGTATGGCACG+AGG - chr2.2:15440485-15440504 None:intergenic 45.0%
CTCCTGATTATTTCAGCCAG+AGG - chr2.2:15440126-15440145 None:intergenic 45.0%
GACCTCTGGCTGAAATAATC+AGG + chr2.2:15440121-15440140 MS.gene059865:intron 45.0%
GAGTGATTTCCTTGAGTGAG+CGG - chr2.2:15440421-15440440 None:intergenic 45.0%
GGTCGGGAGGTAAATTAAGT+TGG - chr2.2:15440159-15440178 None:intergenic 45.0%
TGGAGAAGCTGGTGTAAGAA+AGG + chr2.2:15440343-15440362 MS.gene059865:CDS 45.0%
! GATAACGGCAGTACTAATGG+TGG - chr2.2:15440261-15440280 None:intergenic 45.0%
! TGACCACATCGTTGCTGATT+GGG + chr2.2:15440442-15440461 MS.gene059865:CDS 45.0%
ATGGCACGAGGATTAACACG+AGG - chr2.2:15440473-15440492 None:intergenic 50.0%
CAGACGCGCAATCAACACTT+TGG - chr2.2:15440013-15440032 None:intergenic 50.0%
CAGCCAGAGAATACACCACA+GGG - chr2.2:15440319-15440338 None:intergenic 50.0%
GTGACCACATCGTTGCTGAT+TGG + chr2.2:15440441-15440460 MS.gene059865:CDS 50.0%
GTGTATTCTCTGGCTGCTGA+TGG + chr2.2:15440323-15440342 MS.gene059865:CDS 50.0%
TAGTACCCTAGTTCGACCTC+TGG + chr2.2:15440107-15440126 MS.gene059865:intron 50.0%
TGGCACGAGGATTAACACGA+GGG - chr2.2:15440472-15440491 None:intergenic 50.0%
TGTCCCAATCAGCAACGATG+TGG - chr2.2:15440448-15440467 None:intergenic 50.0%
TTCAGCCAGAGGTCGAACTA+GGG - chr2.2:15440115-15440134 None:intergenic 50.0%
TTTCAGCCAGAGGTCGAACT+AGG - chr2.2:15440116-15440135 None:intergenic 50.0%
AAGTGGATGCCGCTCACTCA+AGG + chr2.2:15440409-15440428 MS.gene059865:CDS 55.0%
ACGCCCTGTGGTGTATTCTC+TGG + chr2.2:15440313-15440332 MS.gene059865:CDS 55.0%
GCAGCCAGAGAATACACCAC+AGG - chr2.2:15440320-15440339 None:intergenic 55.0%
GGCACGAGGATTAACACGAG+GGG - chr2.2:15440471-15440490 None:intergenic 55.0%
TGTCTAGATTGGACGCCCTG+TGG + chr2.2:15440301-15440320 MS.gene059865:intron 55.0%
CTGGCTGCTGATGGAGAAGC+TGG + chr2.2:15440332-15440351 MS.gene059865:CDS 60.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 15439884 15440505 15439884 ID=MS.gene059865
chr2.2 mRNA 15439884 15440505 15439884 ID=MS.gene059865.t1;Parent=MS.gene059865
chr2.2 exon 15439884 15439886 15439884 ID=MS.gene059865.t1.exon1;Parent=MS.gene059865.t1
chr2.2 CDS 15439884 15439886 15439884 ID=cds.MS.gene059865.t1;Parent=MS.gene059865.t1
chr2.2 exon 15440308 15440505 15440308 ID=MS.gene059865.t1.exon2;Parent=MS.gene059865.t1
chr2.2 CDS 15440308 15440505 15440308 ID=cds.MS.gene059865.t1;Parent=MS.gene059865.t1
Gene Sequence

>MS.gene059865

ATGGTCACAATGTCGACGCATTCATGTAGTTAACGGTTTGGAGCTGTTGTGACTCTTATTTTAAGCTCTCTAAGTCAACCATAAAAGCCAACTTTATCAAATTCGTTTGATTTTGATCAAACATCTCCAAAGTGTTGATTGCGCGTCTGAATTCATAATTCTTGAGTGGCTATAGTATCTATGAACCCTGTTAATCTTAAACACAATGGTTGAAATATGCGAGTAGTACCCTAGTTCGACCTCTGGCTGAAATAATCAGGAGTAATCATTGACCAACTTAATTTACCTCCCGACCAAACTTTTATTACGACACTTGTCTTCTATAATATATGGAGGATTAAGACGAACAAAACCAAAATAATTTATCGTTATAACCACCATTAGTACTGCCGTTATCTTAACGAACAAATTATGCAATGTCTAGATTGGACGCCCTGTGGTGTATTCTCTGGCTGCTGATGGAGAAGCTGGTGTAAGAAAGGTCCTTCAAATGTTACGTGATGAGTTTGAGTTAACAATGGCTTTAAGTGGATGCCGCTCACTCAAGGAAATCACTCGTGACCACATCGTTGCTGATTGGGACACCCCTCGTGTTAATCCTCGTGCCATACCAAGATTATGA

Protein sequence

>MS.gene059865.t1

MIGRPVVYSLAADGEAGVRKVLQMLRDEFELTMALSGCRSLKEITRDHIVADWDTPRVNPRAIPRL