AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene061721


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene061721.t1 MTR_0140s0010 62.447 237 34 6 30 228 1 220 7.34e-85 253
MS.gene061721.t1 MTR_3g435550 53.757 173 67 4 82 245 5 173 1.20e-52 169
MS.gene061721.t1 MTR_3g091700 53.704 108 41 2 133 240 159 257 4.27e-30 113
MS.gene061721.t1 MTR_5g024070 35.802 162 89 3 85 242 169 319 4.32e-23 95.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene061721.t1 AT1G18790 65.217 115 39 1 125 238 125 239 2.94e-47 158
MS.gene061721.t1 AT1G74480 40.928 237 120 6 16 234 8 242 2.75e-44 151
MS.gene061721.t1 AT5G66990 58.678 121 48 2 122 240 153 273 1.89e-41 143
MS.gene061721.t1 AT5G53040 55.856 111 40 1 128 238 148 249 8.27e-34 122
MS.gene061721.t1 AT4G35590 34.667 150 89 3 92 235 157 303 3.93e-19 85.1
MS.gene061721.t1 AT4G35590 34.667 150 89 3 92 235 207 353 6.84e-19 85.1
MS.gene061721.t1 AT5G16100 41.176 85 48 1 125 207 351 435 1.07e-13 70.5

Find 56 sgRNAs with CRISPR-Local

Find 85 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTCTTGCAGCTTGTGTTAT+TGG 0.135392 8.1:+16687707 None:intergenic
TGACTTACATGTTAGGAAAT+TGG 0.240258 8.1:+16688334 None:intergenic
GTTGATGGATATCGAGAAAT+TGG 0.245834 8.1:-16687414 MS.gene061721:CDS
AATTGGCGGTTATATGAAAA+TGG 0.251270 8.1:+16688351 None:intergenic
TGATCTTGCAATTGTATATC+TGG 0.302877 8.1:+16687362 None:intergenic
AACCTTGATCAATAATATTC+AGG 0.325902 8.1:-16687597 MS.gene061721:intron
ACAATGTTGTCTAAGCCTTT+TGG 0.326924 8.1:+16687337 None:intergenic
TTACAAGAAAAGAAAGCTTA+TGG 0.338403 8.1:-16687303 MS.gene061721:CDS
CTGCAGACGACTATGAAATT+TGG 0.367816 8.1:-16687919 MS.gene061721:intron
ACTTAGTGTTGAAAAGTTGA+TGG 0.379342 8.1:-16687429 MS.gene061721:CDS
TATTATTGATCAAGGTTTGC+AGG 0.383508 8.1:+16687603 None:intergenic
ACCCATACACAATGATGGTT+TGG 0.385554 8.1:-16688185 MS.gene061721:CDS
TTCCAAACCATCATTGTGTA+TGG 0.398088 8.1:+16688183 None:intergenic
ACACAATGATGGTTTGGAAC+TGG 0.400074 8.1:-16688179 MS.gene061721:CDS
AGTTTCATGACTTACATGTT+AGG 0.400997 8.1:+16688327 None:intergenic
TACCTGAATATTATTGATCA+AGG 0.420609 8.1:+16687595 None:intergenic
TATGGTATGGAGAAAGGATT+TGG 0.421835 8.1:-16687896 MS.gene061721:CDS
TGATGATAACCTTCCAGCCT+TGG 0.426088 8.1:+16688094 None:intergenic
TGAAATTAACAAAGAGGTTG+TGG 0.431311 8.1:-16687816 MS.gene061721:CDS
GGCATTGGTTCAATGTATAG+AGG 0.437542 8.1:+16688115 None:intergenic
ATTTGGTATGGTATGGAGAA+AGG 0.442668 8.1:-16687902 MS.gene061721:CDS
TGTATAGAGGGTGATGATGA+GGG 0.456423 8.1:+16688128 None:intergenic
AGAGTATGCCACTTACTTGT+TGG 0.466970 8.1:-16688401 MS.gene061721:CDS
CATTGAACCAATGCCAAGGC+TGG 0.480155 8.1:-16688107 MS.gene061721:CDS
CTATGAAATTTGGTATGGTA+TGG 0.481213 8.1:-16687909 MS.gene061721:CDS
AGAGGAAATGAAGCTGGTGG+AGG 0.485504 8.1:-16687390 MS.gene061721:CDS
GTTGCAGGAGCTAGGGAAAG+AGG 0.496134 8.1:-16687459 MS.gene061721:intron
TGGATTTGGTTGCAGGAGCT+AGG 0.503102 8.1:-16687467 MS.gene061721:intron
GGAGTGGAGAGGATTAGTGA+TGG 0.512454 8.1:-16687779 MS.gene061721:CDS
GGATTTGGTTGCAGGAGCTA+GGG 0.512821 8.1:-16687466 MS.gene061721:intron
GGAGGTAAAGCTAGAAGGAG+TGG 0.514082 8.1:-16687795 MS.gene061721:CDS
ATGTATAGAGGGTGATGATG+AGG 0.517675 8.1:+16688127 None:intergenic
GTTGTGGAGGTAAAGCTAGA+AGG 0.522008 8.1:-16687800 MS.gene061721:CDS
TAAAAGCTCCAACAAGTAAG+TGG 0.525627 8.1:+16688393 None:intergenic
TAACCTTCCAGCCTTGGCAT+TGG 0.526844 8.1:+16688100 None:intergenic
TATTCACCCATACACAATGA+TGG 0.527857 8.1:-16688190 MS.gene061721:CDS
GGATATCGAGAAATTGGAAG+AGG 0.537710 8.1:-16687408 MS.gene061721:CDS
GACGACTATGAAATTTGGTA+TGG 0.546215 8.1:-16687914 MS.gene061721:CDS
CTTACATGTTAGGAAATTGG+CGG 0.547072 8.1:+16688337 None:intergenic
ATTGGAAGAGGAAATGAAGC+TGG 0.556172 8.1:-16687396 MS.gene061721:CDS
AATTGCAAGATCATACCAAA+AGG 0.561321 8.1:-16687352 MS.gene061721:CDS
TAAAGCTAGAAGGAGTGGAG+AGG 0.578999 8.1:-16687790 MS.gene061721:CDS
GAACCAATGCCAAGGCTGGA+AGG 0.579018 8.1:-16688103 MS.gene061721:intron
GTATAGAGGGTGATGATGAG+GGG 0.582910 8.1:+16688129 None:intergenic
TCCAAACCATCATTGTGTAT+GGG 0.593952 8.1:+16688184 None:intergenic
GCATTGGTTCAATGTATAGA+GGG 0.595733 8.1:+16688116 None:intergenic
TGGAAATGAAATTAACAAAG+AGG 0.597270 8.1:-16687822 MS.gene061721:CDS
AGCTGCAAGAGAACTGAATG+TGG 0.601755 8.1:-16687696 MS.gene061721:CDS
GTAGGGAGTTGGGTATTCGT+AGG 0.615855 8.1:-16687649 MS.gene061721:CDS
AATTAACAAAGAGGTTGTGG+AGG 0.641037 8.1:-16687813 MS.gene061721:CDS
GCTGCAAGAGAACTGAATGT+GGG 0.643443 8.1:-16687695 MS.gene061721:CDS
GGGAGTTGGGTATTCGTAGG+TGG 0.654663 8.1:-16687646 MS.gene061721:CDS
GTAACACAAAGAATTTGTCA+AGG 0.655690 8.1:-16687757 MS.gene061721:CDS
GGAAGAGGAAATGAAGCTGG+TGG 0.660598 8.1:-16687393 MS.gene061721:CDS
CAGGAGCTAGGGAAAGAGGA+TGG 0.660990 8.1:-16687455 MS.gene061721:CDS
TATACATTGAACCAATGCCA+AGG 0.667387 8.1:-16688111 MS.gene061721:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTATTCTCATTTTAAATTT+TGG - chr8.1:16687665-16687684 MS.gene061721:CDS 10.0%
!!! AATTTATTTAATTTTTGCAG+TGG - chr8.1:16687462-16687481 MS.gene061721:intron 15.0%
!! CATATAAAAATACTGAGATA+TGG + chr8.1:16687961-16687980 None:intergenic 20.0%
!! CATGCAAAAATTTATTACTT+CGG - chr8.1:16687420-16687439 MS.gene061721:CDS 20.0%
!!! AACATTATGTTGATTGTTTA+TGG - chr8.1:16688184-16688203 MS.gene061721:CDS 20.0%
! AACCTTGATCAATAATATTC+AGG - chr8.1:16688091-16688110 MS.gene061721:intron 25.0%
! CTTATAAATAATTGGGAATG+TGG + chr8.1:16687633-16687652 None:intergenic 25.0%
! TACCTGAATATTATTGATCA+AGG + chr8.1:16688096-16688115 None:intergenic 25.0%
! TGAGTATATTATGTTGGATT+TGG - chr8.1:16688207-16688226 MS.gene061721:CDS 25.0%
! TGGAAATGAAATTAACAAAG+AGG - chr8.1:16687866-16687885 MS.gene061721:CDS 25.0%
! TGTTCTTCTGATTAATATTG+TGG - chr8.1:16687740-16687759 MS.gene061721:CDS 25.0%
! TTACAAGAAAAGAAAGCTTA+TGG - chr8.1:16688385-16688404 MS.gene061721:CDS 25.0%
! TTATGGTGAGTATATTATGT+TGG - chr8.1:16688201-16688220 MS.gene061721:CDS 25.0%
!! AAGCTTTCTTTTCTTGTAAT+TGG + chr8.1:16688384-16688403 None:intergenic 25.0%
!! CGAAGTAATAAATTTTTGCA+TGG + chr8.1:16687422-16687441 None:intergenic 25.0%
!!! CTCATTTTAAATTTTGGTTG+CGG - chr8.1:16687671-16687690 MS.gene061721:CDS 25.0%
AATTGCAAGATCATACCAAA+AGG - chr8.1:16688336-16688355 MS.gene061721:intron 30.0%
AATTGGCGGTTATATGAAAA+TGG + chr8.1:16687340-16687359 None:intergenic 30.0%
ACATTTGAAAAAACGGTGTA+GGG - chr8.1:16688022-16688041 MS.gene061721:intron 30.0%
AGTTTCATGACTTACATGTT+AGG + chr8.1:16687364-16687383 None:intergenic 30.0%
CTATGAAATTTGGTATGGTA+TGG - chr8.1:16687779-16687798 MS.gene061721:CDS 30.0%
GTAACACAAAGAATTTGTCA+AGG - chr8.1:16687931-16687950 MS.gene061721:intron 30.0%
TATTATTGATCAAGGTTTGC+AGG + chr8.1:16688088-16688107 None:intergenic 30.0%
TCTGATTAATATTGTGGTTG+TGG - chr8.1:16687746-16687765 MS.gene061721:CDS 30.0%
TGAAATTAACAAAGAGGTTG+TGG - chr8.1:16687872-16687891 MS.gene061721:CDS 30.0%
TGACTTACATGTTAGGAAAT+TGG + chr8.1:16687357-16687376 None:intergenic 30.0%
TGATCTTGCAATTGTATATC+TGG + chr8.1:16688329-16688348 None:intergenic 30.0%
! ACTTAGTGTTGAAAAGTTGA+TGG - chr8.1:16688259-16688278 MS.gene061721:intron 30.0%
!! GCTTAGACAACATTGTTTTA+AGG - chr8.1:16688358-16688377 MS.gene061721:CDS 30.0%
AATTAACAAAGAGGTTGTGG+AGG - chr8.1:16687875-16687894 MS.gene061721:CDS 35.0%
ATTTGGTATGGTATGGAGAA+AGG - chr8.1:16687786-16687805 MS.gene061721:CDS 35.0%
CACATTTGAAAAAACGGTGT+AGG - chr8.1:16688021-16688040 MS.gene061721:intron 35.0%
CTTACATGTTAGGAAATTGG+CGG + chr8.1:16687354-16687373 None:intergenic 35.0%
GACGACTATGAAATTTGGTA+TGG - chr8.1:16687774-16687793 MS.gene061721:CDS 35.0%
GCCTCACACATTTGAAAAAA+CGG - chr8.1:16688015-16688034 MS.gene061721:intron 35.0%
TAAAAGCTCCAACAAGTAAG+TGG + chr8.1:16687298-16687317 None:intergenic 35.0%
TATACATTGAACCAATGCCA+AGG - chr8.1:16687577-16687596 MS.gene061721:intron 35.0%
TATGGTATGGAGAAAGGATT+TGG - chr8.1:16687792-16687811 MS.gene061721:CDS 35.0%
TATTCACCCATACACAATGA+TGG - chr8.1:16687498-16687517 MS.gene061721:intron 35.0%
TCCAAACCATCATTGTGTAT+GGG + chr8.1:16687507-16687526 None:intergenic 35.0%
TTCCAAACCATCATTGTGTA+TGG + chr8.1:16687508-16687527 None:intergenic 35.0%
! ACAATGTTGTCTAAGCCTTT+TGG + chr8.1:16688354-16688373 None:intergenic 35.0%
! ATTATGTTGGATTTGGTTGC+AGG - chr8.1:16688214-16688233 MS.gene061721:intron 35.0%
! GCGTTTGATTCTGAAAAAAG+TGG - chr8.1:16687846-16687865 MS.gene061721:CDS 35.0%
! GTTGATGGATATCGAGAAAT+TGG - chr8.1:16688274-16688293 MS.gene061721:intron 35.0%
!! GCATTGGTTCAATGTATAGA+GGG + chr8.1:16687575-16687594 None:intergenic 35.0%
!!! ACCGTTTTTTCAAATGTGTG+AGG + chr8.1:16688019-16688038 None:intergenic 35.0%
AAAAAACGGTGTAGGGAGTT+GGG - chr8.1:16688029-16688048 MS.gene061721:intron 40.0%
ACCCATACACAATGATGGTT+TGG - chr8.1:16687503-16687522 MS.gene061721:intron 40.0%
ATTGGAAGAGGAAATGAAGC+TGG - chr8.1:16688292-16688311 MS.gene061721:intron 40.0%
CTGCAGACGACTATGAAATT+TGG - chr8.1:16687769-16687788 MS.gene061721:CDS 40.0%
GGATATCGAGAAATTGGAAG+AGG - chr8.1:16688280-16688299 MS.gene061721:intron 40.0%
TCTCTTGCAGCTTGTGTTAT+TGG + chr8.1:16687984-16688003 None:intergenic 40.0%
TTGGGAATGTGGCATGTATA+TGG + chr8.1:16687622-16687641 None:intergenic 40.0%
! ACACAATGATGGTTTGGAAC+TGG - chr8.1:16687509-16687528 MS.gene061721:intron 40.0%
! AGAGTATGCCACTTACTTGT+TGG - chr8.1:16687287-16687306 MS.gene061721:CDS 40.0%
! AGGCTCATGAGTTTTCTATG+GGG + chr8.1:16688068-16688087 None:intergenic 40.0%
! ATGTATAGAGGGTGATGATG+AGG + chr8.1:16687564-16687583 None:intergenic 40.0%
! CAGGCTCATGAGTTTTCTAT+GGG + chr8.1:16688069-16688088 None:intergenic 40.0%
! TGTATAGAGGGTGATGATGA+GGG + chr8.1:16687563-16687582 None:intergenic 40.0%
!! GGCATTGGTTCAATGTATAG+AGG + chr8.1:16687576-16687595 None:intergenic 40.0%
AGCTGCAAGAGAACTGAATG+TGG - chr8.1:16687992-16688011 MS.gene061721:intron 45.0%
GAAAAAACGGTGTAGGGAGT+TGG - chr8.1:16688028-16688047 MS.gene061721:intron 45.0%
GCTGCAAGAGAACTGAATGT+GGG - chr8.1:16687993-16688012 MS.gene061721:intron 45.0%
GTTGTGGAGGTAAAGCTAGA+AGG - chr8.1:16687888-16687907 MS.gene061721:CDS 45.0%
TAAAGCTAGAAGGAGTGGAG+AGG - chr8.1:16687898-16687917 MS.gene061721:CDS 45.0%
TGATGATAACCTTCCAGCCT+TGG + chr8.1:16687597-16687616 None:intergenic 45.0%
! GCAGGCTCATGAGTTTTCTA+TGG + chr8.1:16688070-16688089 None:intergenic 45.0%
! GTATAGAGGGTGATGATGAG+GGG + chr8.1:16687562-16687581 None:intergenic 45.0%
!! ATATAAACTTATAAATAATT+GGG + chr8.1:16687640-16687659 None:intergenic 5.0%
!! TATATAAACTTATAAATAAT+TGG + chr8.1:16687641-16687660 None:intergenic 5.0%
!!! GTTATTATTATTATTATTTT+TGG + chr8.1:16688167-16688186 None:intergenic 5.0%
AGAGGAAATGAAGCTGGTGG+AGG - chr8.1:16688298-16688317 MS.gene061721:intron 50.0%
CATTGAACCAATGCCAAGGC+TGG - chr8.1:16687581-16687600 MS.gene061721:intron 50.0%
GGAAGAGGAAATGAAGCTGG+TGG - chr8.1:16688295-16688314 MS.gene061721:intron 50.0%
GGAGGTAAAGCTAGAAGGAG+TGG - chr8.1:16687893-16687912 MS.gene061721:CDS 50.0%
GTAGGGAGTTGGGTATTCGT+AGG - chr8.1:16688039-16688058 MS.gene061721:intron 50.0%
TAACCTTCCAGCCTTGGCAT+TGG + chr8.1:16687591-16687610 None:intergenic 50.0%
! GGAGTGGAGAGGATTAGTGA+TGG - chr8.1:16687909-16687928 MS.gene061721:CDS 50.0%
! GGATTTGGTTGCAGGAGCTA+GGG - chr8.1:16688222-16688241 MS.gene061721:intron 50.0%
! TGGATTTGGTTGCAGGAGCT+AGG - chr8.1:16688221-16688240 MS.gene061721:intron 50.0%
CAGGAGCTAGGGAAAGAGGA+TGG - chr8.1:16688233-16688252 MS.gene061721:intron 55.0%
GAACCAATGCCAAGGCTGGA+AGG - chr8.1:16687585-16687604 MS.gene061721:intron 55.0%
GGGAGTTGGGTATTCGTAGG+TGG - chr8.1:16688042-16688061 MS.gene061721:intron 55.0%
GTTGCAGGAGCTAGGGAAAG+AGG - chr8.1:16688229-16688248 MS.gene061721:intron 55.0%


Chromosome Type Strat End Strand Name
chr8.1 gene 16687283 16688427 16687283 ID=MS.gene061721
chr8.1 mRNA 16687283 16688427 16687283 ID=MS.gene061721.t1;Parent=MS.gene061721
chr8.1 exon 16688342 16688427 16688342 ID=MS.gene061721.t1.exon1;Parent=MS.gene061721.t1
chr8.1 CDS 16688342 16688427 16688342 ID=cds.MS.gene061721.t1;Parent=MS.gene061721.t1
chr8.1 exon 16688104 16688228 16688104 ID=MS.gene061721.t1.exon2;Parent=MS.gene061721.t1
chr8.1 CDS 16688104 16688228 16688104 ID=cds.MS.gene061721.t1;Parent=MS.gene061721.t1
chr8.1 exon 16687598 16687935 16687598 ID=MS.gene061721.t1.exon3;Parent=MS.gene061721.t1
chr8.1 CDS 16687598 16687935 16687598 ID=cds.MS.gene061721.t1;Parent=MS.gene061721.t1
chr8.1 exon 16687283 16687474 16687283 ID=MS.gene061721.t1.exon4;Parent=MS.gene061721.t1
chr8.1 CDS 16687283 16687474 16687283 ID=cds.MS.gene061721.t1;Parent=MS.gene061721.t1
Gene Sequence

>MS.gene061721

ATGGAGAGTATGCCACTTACTTGTTGGAGCTTTTACAATGACATAGATGAAAAGCCATTTTCATATAACCGCCAATTTCCTAACATGTAAGTCATGAAACTAGTGTTTAATTACATCTCTTTTTTACATTATGTTGCCATGCAAAAATTTATTACTTCGGTTTTTGAGTACTCATTAGAAATTTATTTAATTTTTGCAGTGGAATCATTAGTGAGTATTCACCCATACACAATGATGGTTTGGAACTGGATTTTGATTCTCTTATGAAGTGTAATTCCCCTCATCATCACCCTCTATACATTGAACCAATGCCAAGGCTGGAAGGTTATCATCAAACCATATACATGCCACATTCCCAATTATTTATAAGTTTATATATTCTATTATTCTCATTTTAAATTTTGGTTGCGGTAATGATTGCAAACTTTTATATTGTAATAAATACAAAGCAATTATATGTTCTTCTGATTAATATTGTGGTTGTGGCTGCAGACGACTATGAAATTTGGTATGGTATGGAGAAAGGATTTGGTGACTTGAGCGAAATGATCGATGATTATGCAGCGTTTGATTCTGAAAAAAGTGGAAATGAAATTAACAAAGAGGTTGTGGAGGTAAAGCTAGAAGGAGTGGAGAGGATTAGTGATGGTAACACAAAGAATTTGTCAAGGAAGACCATATCTCAGTATTTTTATATGCCAATAACACAAGCTGCAAGAGAACTGAATGTGGGCCTCACACATTTGAAAAAACGGTGTAGGGAGTTGGGTATTCGTAGGTGGCCCCATAGAAAACTCATGAGCCTGCAAACCTTGATCAATAATATTCAGGTACTTGAAAAAGAAACTTTTTAGTATATAAATGTCATTATGTTGTTGTTACCAAAAATAATAATAATAATAACATTATGTTGATTGTTTATGGTGAGTATATTATGTTGGATTTGGTTGCAGGAGCTAGGGAAAGAGGATGGTCTACTTAGTGTTGAAAAGTTGATGGATATCGAGAAATTGGAAGAGGAAATGAAGCTGGTGGAGGAGATGCCAGATATACAATTGCAAGATCATACCAAAAGGCTTAGACAACATTGTTTTAAGGCCAATTACAAGAAAAGAAAGCTTATGGATCAGCTGATCATGTTTTAA

Protein sequence

>MS.gene061721.t1

MESMPLTCWSFYNDIDEKPFSYNRQFPNIGIISEYSPIHNDGLELDFDSLMKCNSPHHHPLYIEPMPRLEDDYEIWYGMEKGFGDLSEMIDDYAAFDSEKSGNEINKEVVEVKLEGVERISDGNTKNLSRKTISQYFYMPITQAARELNVGLTHLKKRCRELGIRRWPHRKLMSLQTLINNIQELGKEDGLLSVEKLMDIEKLEEEMKLVEEMPDIQLQDHTKRLRQHCFKANYKKRKLMDQLIMF