AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene78575

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene78575.t1 MTR_7g113080 100.000 108 0 0 1 108 19 126 3.21e-79 228
MS.gene78575.t1 MTR_4g119860 60.360 111 37 2 1 108 19 125 3.32e-40 130
MS.gene78575.t1 MTR_7g108600 56.481 108 40 3 4 109 15 117 4.55e-35 116
MS.gene78575.t1 MTR_3g084350 53.247 77 32 3 32 107 53 126 4.46e-20 79.3
MS.gene78575.t1 MTR_4g088685 56.250 64 26 1 46 107 44 107 2.24e-19 76.6
MS.gene78575.t1 MTR_6g060260 48.485 66 29 1 42 107 41 101 1.11e-15 67.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene78575.t1 AT4G15800 84.211 76 12 0 33 108 40 115 1.13e-43 138
MS.gene78575.t1 AT1G02900 60.909 110 39 2 1 109 14 120 2.14e-41 132
MS.gene78575.t1 AT3G16570 65.556 90 17 2 33 108 47 136 2.14e-33 113
MS.gene78575.t1 AT3G16570 65.556 90 17 2 33 108 47 136 2.14e-33 113
MS.gene78575.t1 AT3G16570 65.556 90 17 2 33 108 47 136 2.14e-33 113
MS.gene78575.t1 AT3G05490 81.034 58 11 0 51 108 61 118 2.77e-30 104
MS.gene78575.t1 AT2G33775 57.971 69 28 1 40 107 37 105 4.18e-23 86.3
MS.gene78575.t1 AT1G28270 55.072 69 30 1 40 107 37 105 1.73e-19 77.0
MS.gene78575.t1 AT4G13950 57.812 64 25 2 45 107 42 104 4.49e-18 73.6
MS.gene78575.t1 AT3G23805 60.714 56 20 2 53 107 55 109 1.14e-15 67.4
MS.gene78575.t1 AT5G67070 51.282 78 27 5 42 108 51 128 3.10e-12 58.9

Find 29 sgRNAs with CRISPR-Local

Find 30 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCACTGCATCCACGGCTGTA+AGG 0.445471 7.4:-3627421 None:intergenic
AGTTTGATAATGAAATCAAC+AGG 0.461525 7.4:+3627284 MS.gene78575:CDS
CGCACCATAGCTGATGTACT+TGG 0.465658 7.4:-3627323 None:intergenic
CACTGCATCCACGGCTGTAA+GGG 0.481328 7.4:-3627420 None:intergenic
CAATTGCAGACCCGGTGCTC+AGG 0.488139 7.4:+3627393 MS.gene78575:CDS
CCTCCAGCTGCATCTACTGT+TGG 0.503199 7.4:-3627160 None:intergenic
GCAGCTGGAGGATTCGAACT+TGG 0.512453 7.4:+3627172 MS.gene78575:CDS
GAAGCACCACGGCGAGAACA+AGG 0.526826 7.4:-3627364 None:intergenic
GTAAGGGTTAGCCTGAGCAC+CGG 0.526971 7.4:-3627404 None:intergenic
ATCAGCGATGGAACCTTCGC+AGG 0.533132 7.4:-3627230 None:intergenic
TCTCCAACAGTAGATGCAGC+TGG 0.538924 7.4:+3627157 MS.gene78575:CDS
TCTTACTACAATTGCAGACC+CGG 0.540294 7.4:+3627385 MS.gene78575:CDS
AGGATTCGAACTTGGAGGAA+TGG 0.547500 7.4:+3627180 MS.gene78575:CDS
GCTGGAGGATTCGAACTTGG+AGG 0.550332 7.4:+3627175 MS.gene78575:CDS
TCGAACTTGGAGGAATGGAA+TGG 0.552877 7.4:+3627185 MS.gene78575:CDS
TCAGCTATGGTGCGCTTCAG+AGG 0.563424 7.4:+3627332 MS.gene78575:CDS
GCAGTGCTATTACGAGGTGC+AGG 0.566649 7.4:+3627437 MS.gene78575:CDS
TCGTAATAGCACTGCATCCA+CGG 0.577260 7.4:-3627429 None:intergenic
TAAGGGTTAGCCTGAGCACC+GGG 0.580885 7.4:-3627403 None:intergenic
TTGTAACATGCAATCAGCGA+TGG 0.586357 7.4:-3627242 None:intergenic
CAGGCTAACCCTTACAGCCG+TGG 0.595858 7.4:+3627412 MS.gene78575:CDS
ACGACCAAGTACATCAGCTA+TGG 0.604031 7.4:+3627319 MS.gene78575:CDS
AGCGATGGAACCTTCGCAGG+TGG 0.625016 7.4:-3627227 None:intergenic
AAGCACCACGGCGAGAACAA+GGG 0.626487 7.4:-3627363 None:intergenic
ACTGTCCCTTGTTCTCGCCG+TGG 0.647098 7.4:+3627358 MS.gene78575:CDS
CCAACAGTAGATGCAGCTGG+AGG 0.701563 7.4:+3627160 MS.gene78575:CDS
GCTGATTGCATGTTACAACA+AGG 0.712911 7.4:+3627247 MS.gene78575:CDS
GTGGATGCAGTGCTATTACG+AGG 0.733772 7.4:+3627431 MS.gene78575:CDS
AATTGTAGTAAGAAGCACCA+CGG 0.751980 7.4:-3627375 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AGTTTGATAATGAAATCAAC+AGG + chr7.4:3627284-3627303 MS.gene78575:CDS 25.0%
!! AATTGTAGTAAGAAGCACCA+CGG - chr7.4:3627378-3627397 None:intergenic 35.0%
GCTGATTGCATGTTACAACA+AGG + chr7.4:3627247-3627266 MS.gene78575:CDS 40.0%
TCTTACTACAATTGCAGACC+CGG + chr7.4:3627385-3627404 MS.gene78575:CDS 40.0%
TTGTAACATGCAATCAGCGA+TGG - chr7.4:3627245-3627264 None:intergenic 40.0%
ACGACCAAGTACATCAGCTA+TGG + chr7.4:3627319-3627338 MS.gene78575:CDS 45.0%
AGGATTCGAACTTGGAGGAA+TGG + chr7.4:3627180-3627199 MS.gene78575:CDS 45.0%
TCGAACTTGGAGGAATGGAA+TGG + chr7.4:3627185-3627204 MS.gene78575:CDS 45.0%
TCGTAATAGCACTGCATCCA+CGG - chr7.4:3627432-3627451 None:intergenic 45.0%
ACAAAAACAGCCACCTGCGA+AGG + chr7.4:3627217-3627236 MS.gene78575:CDS 50.0%
CGCACCATAGCTGATGTACT+TGG - chr7.4:3627326-3627345 None:intergenic 50.0%
TCTCCAACAGTAGATGCAGC+TGG + chr7.4:3627157-3627176 MS.gene78575:CDS 50.0%
! GTGGATGCAGTGCTATTACG+AGG + chr7.4:3627431-3627450 MS.gene78575:CDS 50.0%
AAGCACCACGGCGAGAACAA+GGG - chr7.4:3627366-3627385 None:intergenic 55.0%
ATCAGCGATGGAACCTTCGC+AGG - chr7.4:3627233-3627252 None:intergenic 55.0%
CACTGCATCCACGGCTGTAA+GGG - chr7.4:3627423-3627442 None:intergenic 55.0%
CCAACAGTAGATGCAGCTGG+AGG + chr7.4:3627160-3627179 MS.gene78575:CDS 55.0%
CCTCCAGCTGCATCTACTGT+TGG - chr7.4:3627163-3627182 None:intergenic 55.0%
GCAGCTGGAGGATTCGAACT+TGG + chr7.4:3627172-3627191 MS.gene78575:CDS 55.0%
GCTGGAGGATTCGAACTTGG+AGG + chr7.4:3627175-3627194 MS.gene78575:CDS 55.0%
TCAGCTATGGTGCGCTTCAG+AGG + chr7.4:3627332-3627351 MS.gene78575:CDS 55.0%
! GCAGTGCTATTACGAGGTGC+AGG + chr7.4:3627437-3627456 MS.gene78575:CDS 55.0%
!! GTAAGGGTTAGCCTGAGCAC+CGG - chr7.4:3627407-3627426 None:intergenic 55.0%
!! TAAGGGTTAGCCTGAGCACC+GGG - chr7.4:3627406-3627425 None:intergenic 55.0%
ACTGTCCCTTGTTCTCGCCG+TGG + chr7.4:3627358-3627377 MS.gene78575:CDS 60.0%
AGCGATGGAACCTTCGCAGG+TGG - chr7.4:3627230-3627249 None:intergenic 60.0%
CAATTGCAGACCCGGTGCTC+AGG + chr7.4:3627393-3627412 MS.gene78575:CDS 60.0%
CAGGCTAACCCTTACAGCCG+TGG + chr7.4:3627412-3627431 MS.gene78575:CDS 60.0%
GCACTGCATCCACGGCTGTA+AGG - chr7.4:3627424-3627443 None:intergenic 60.0%
! GAAGCACCACGGCGAGAACA+AGG - chr7.4:3627367-3627386 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 3627136 3627465 3627136 ID=MS.gene78575
chr7.4 mRNA 3627136 3627465 3627136 ID=MS.gene78575.t1;Parent=MS.gene78575
chr7.4 exon 3627136 3627465 3627136 ID=MS.gene78575.t1.exon1;Parent=MS.gene78575.t1
chr7.4 CDS 3627136 3627465 3627136 ID=cds.MS.gene78575.t1;Parent=MS.gene78575.t1
Gene Sequence

>MS.gene78575

ATGACAACGATGATGAGTTCTTCTCCAACAGTAGATGCAGCTGGAGGATTCGAACTTGGAGGAATGGAATGGATTCATCAAACAAAAACAGCCACCTGCGAAGGTTCCATCGCTGATTGCATGTTACAACAAGGTGAAGAAGAGTTTCAGTTTGATAATGAAATCAACAGGCGTATCTTAGCAACGACCAAGTACATCAGCTATGGTGCGCTTCAGAGGAACACTGTCCCTTGTTCTCGCCGTGGTGCTTCTTACTACAATTGCAGACCCGGTGCTCAGGCTAACCCTTACAGCCGTGGATGCAGTGCTATTACGAGGTGCAGGAGTTAA
Protein sequence

>MS.gene78575.t1

MTTMMSSSPTVDAAGGFELGGMEWIHQTKTATCEGSIADCMLQQGEEEFQFDNEINRRILATTKYISYGALQRNTVPCSRRGASYYNCRPGAQANPYSRGCSAITRCRS