AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene023888


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene023888.t1 MTR_7g077620 68.729 291 85 5 2 290 84 370 1.60e-133 384
MS.gene023888.t1 MTR_7g077660 68.493 292 84 6 3 292 83 368 4.87e-128 369
MS.gene023888.t1 MTR_7g077650 66.000 300 85 5 1 292 82 372 9.52e-126 363
MS.gene023888.t1 MTR_7g076110 54.515 299 121 6 3 292 21 313 1.11e-100 297
MS.gene023888.t1 MTR_7g076100 63.180 239 81 4 57 292 66 300 1.19e-93 279
MS.gene023888.t1 MTR_1g108740 42.712 295 140 11 1 290 74 344 5.05e-57 187
MS.gene023888.t1 MTR_5g038260 41.806 299 133 12 24 292 96 383 1.40e-53 179
MS.gene023888.t1 MTR_5g038230 38.983 295 117 11 24 290 94 353 8.93e-46 158
MS.gene023888.t1 MTR_1g064570 36.578 339 151 15 3 292 77 400 7.76e-45 156
MS.gene023888.t1 MTR_5g082770 45.495 222 95 7 15 224 81 288 8.31e-43 148
MS.gene023888.t1 MTR_7g076130 60.317 126 45 2 87 209 25 148 5.19e-41 139
MS.gene023888.t1 MTR_5g082780 40.789 228 102 8 34 248 2 209 4.73e-38 134
MS.gene023888.t1 MTR_1g016150 43.478 115 62 3 1 114 83 195 3.06e-22 93.2
MS.gene023888.t1 MTR_6g023955 48.000 75 38 1 60 133 74 148 2.74e-11 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 58 sgRNAs with CRISPR-Local

Find 72 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAAGGTGATAAGAAGAATTT+AGG 0.132686 7.1:-26100739 MS.gene023888:CDS
AAAGAGCAAGCCAATCATTT+TGG 0.202770 7.1:-26101218 MS.gene023888:CDS
CAAACTCCACATTCACAAAT+TGG 0.228054 7.1:-26100914 MS.gene023888:CDS
TTCTCGTAGCAAGTAAAATT+AGG 0.229231 7.1:+26101063 None:intergenic
AATGAACAAACTTGAGAGTT+TGG 0.291432 7.1:-26100860 MS.gene023888:CDS
TGTTCACCTAATACAATATA+TGG 0.299029 7.1:+26101027 None:intergenic
AGTACTCCATATATTGTATT+AGG 0.310368 7.1:-26101033 MS.gene023888:CDS
CCATGGTTGGCTTGCATTAA+CGG 0.321484 7.1:-26101409 MS.gene023888:CDS
GGAGCTACACTGTACTTAAA+AGG 0.330559 7.1:+26101357 None:intergenic
GAAGGATGGGATAATTGAAT+AGG 0.335830 7.1:+26101468 None:intergenic
TAATCACTTGGGCTTGTAAT+GGG 0.338599 7.1:+26101282 None:intergenic
TTCGAGAGGTGGCAGAATAA+TGG 0.341176 7.1:+26101335 None:intergenic
CTCCAAGTTGGAAAAGGATT+CGG 0.375437 7.1:-26100776 MS.gene023888:CDS
TTACACAAATCCAAAATGAT+TGG 0.383794 7.1:+26101208 None:intergenic
AAAAGGATTCACTAGAGTTA+TGG 0.384998 7.1:+26101374 None:intergenic
AGCCTCTTGTTTCTCCAAGT+TGG 0.404761 7.1:-26100788 MS.gene023888:CDS
GGGTTCTACCACAATTTCAA+TGG 0.408660 7.1:-26100636 MS.gene023888:CDS
TCTCGTAGCAAGTAAAATTA+GGG 0.412405 7.1:+26101064 None:intergenic
AAGGTGATAAGAAGAATTTA+GGG 0.425808 7.1:-26100738 MS.gene023888:CDS
TCGAGAGGTGGCAGAATAAT+GGG 0.430593 7.1:+26101336 None:intergenic
TTGTTTCTCCAAGTTGGAAA+AGG 0.437802 7.1:-26100782 MS.gene023888:CDS
AAGCCAACCATGGCTACAAC+CGG 0.461155 7.1:+26101419 None:intergenic
TACTTTCAATGATGGAAGGA+TGG 0.467431 7.1:+26101454 None:intergenic
ATGAGGATTATTCAGCTTGA+AGG 0.468472 7.1:+26101104 None:intergenic
ATAATCACTTGGGCTTGTAA+TGG 0.476686 7.1:+26101281 None:intergenic
AAGGATGGGATAATTGAATA+GGG 0.479464 7.1:+26101469 None:intergenic
GGTTCTACCACAATTTCAAT+GGG 0.480142 7.1:-26100635 MS.gene023888:CDS
ACCTCTCGAAGCTGTTTACA+AGG 0.482941 7.1:-26101322 MS.gene023888:CDS
AATCATTGATCGGAGACATA+TGG 0.483154 7.1:-26100972 MS.gene023888:CDS
TGGCCGGTTGTAGCCATGGT+TGG 0.485159 7.1:-26101422 MS.gene023888:CDS
GAGATCTATAATGTGAATGA+TGG 0.493399 7.1:-26100712 MS.gene023888:CDS
TACAAGCCCAAGTGATTATG+TGG 0.499442 7.1:-26101277 MS.gene023888:CDS
ACTTTCAATGATGGAAGGAT+GGG 0.503431 7.1:+26101455 None:intergenic
CGCGGCTATCAGCAAATACC+AGG 0.511548 7.1:+26101142 None:intergenic
TATTTCGTGAAATCATTGAT+CGG 0.545544 7.1:-26100982 MS.gene023888:CDS
CTAGTTCCAATTTGTGAATG+TGG 0.551800 7.1:+26100908 None:intergenic
ATGTGAATGATGGAAGCTTA+CGG 0.552571 7.1:-26100702 MS.gene023888:CDS
GCGGCAACCACATAATCACT+TGG 0.553476 7.1:+26101270 None:intergenic
TGCATTCGCTCGAAGGAAAG+TGG 0.562548 7.1:+26100667 None:intergenic
TGTAATGGGGTCAGCAGACA+AGG 0.568289 7.1:+26101296 None:intergenic
GGTCAATCCCATTGAAATTG+TGG 0.574786 7.1:+26100628 None:intergenic
CCGTTAATGCAAGCCAACCA+TGG 0.592476 7.1:+26101409 None:intergenic
TTCCAACTTGGAGAAACAAG+AGG 0.597328 7.1:+26100786 None:intergenic
AATCACTTGGGCTTGTAATG+GGG 0.606028 7.1:+26101283 None:intergenic
GTTGCCGCGATTTACAATTG+TGG 0.606120 7.1:-26101255 MS.gene023888:CDS
AACTTGGAGAAACAAGAGGC+TGG 0.606698 7.1:+26100790 None:intergenic
TTGTAAACAGCTTCGAGAGG+TGG 0.615094 7.1:+26101324 None:intergenic
ATTCAGCTTGAAGGATACAA+TGG 0.618432 7.1:+26101113 None:intergenic
CTGGTATTTGCTGATAGCCG+CGG 0.626838 7.1:-26101141 MS.gene023888:CDS
CGGCAACCACATAATCACTT+GGG 0.631654 7.1:+26101271 None:intergenic
TCATTTGAGTCATCACAATG+AGG 0.645711 7.1:+26101087 None:intergenic
AGGATACAATGGTATTTCCG+CGG 0.667549 7.1:+26101124 None:intergenic
ATGATTTCACGAAATAAACA+TGG 0.672773 7.1:+26100989 None:intergenic
ATTGATCGGAGACATATGGA+TGG 0.674233 7.1:-26100968 MS.gene023888:CDS
ACCTTGTAAACAGCTTCGAG+AGG 0.677454 7.1:+26101321 None:intergenic
GCATAGAAGTTGAATCACCA+CGG 0.688735 7.1:+26100812 None:intergenic
AAAACCACAATTGTAAATCG+CGG 0.692121 7.1:+26101251 None:intergenic
TTGGAACTAGACGTCCAGAG+TGG 0.702846 7.1:-26100895 MS.gene023888:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAACATTTTACTTTCAATGA+TGG + chr7.1:26100673-26100692 None:intergenic 20.0%
!!! ACTCATGTTGTATTTTATAA+AGG - chr7.1:26100951-26100970 MS.gene023888:CDS 20.0%
!!! CATTGAAAGTAAAATGTTTT+TGG - chr7.1:26100674-26100693 MS.gene023888:CDS 20.0%
! AAGGTGATAAGAAGAATTTA+GGG - chr7.1:26101378-26101397 MS.gene023888:CDS 25.0%
! AGTACTCCATATATTGTATT+AGG - chr7.1:26101083-26101102 MS.gene023888:CDS 25.0%
! ATGATTTCACGAAATAAACA+TGG + chr7.1:26101130-26101149 None:intergenic 25.0%
! TATTTCGTGAAATCATTGAT+CGG - chr7.1:26101134-26101153 MS.gene023888:CDS 25.0%
! TGTTCACCTAATACAATATA+TGG + chr7.1:26101092-26101111 None:intergenic 25.0%
! TTACACAAATCCAAAATGAT+TGG + chr7.1:26100911-26100930 None:intergenic 25.0%
!!! ATTTTACTTTCAATGATGGA+AGG + chr7.1:26100669-26100688 None:intergenic 25.0%
!!! GAAGACAACATTTTATTTGT+CGG - chr7.1:26101278-26101297 MS.gene023888:CDS 25.0%
AAAACCACAATTGTAAATCG+CGG + chr7.1:26100868-26100887 None:intergenic 30.0%
AAAAGGATTCACTAGAGTTA+TGG + chr7.1:26100745-26100764 None:intergenic 30.0%
AAGGATGGGATAATTGAATA+GGG + chr7.1:26100650-26100669 None:intergenic 30.0%
AATGAACAAACTTGAGAGTT+TGG - chr7.1:26101256-26101275 MS.gene023888:CDS 30.0%
GAAGGTGATAAGAAGAATTT+AGG - chr7.1:26101377-26101396 MS.gene023888:CDS 30.0%
GAGATCTATAATGTGAATGA+TGG - chr7.1:26101404-26101423 MS.gene023888:CDS 30.0%
TCTCGTAGCAAGTAAAATTA+GGG + chr7.1:26101055-26101074 None:intergenic 30.0%
TTCTCGTAGCAAGTAAAATT+AGG + chr7.1:26101056-26101075 None:intergenic 30.0%
! TGTTGTATTTTATAAAGGCC+TGG - chr7.1:26100956-26100975 MS.gene023888:CDS 30.0%
!!! GAAAGTAAAATGTTTTTGGC+CGG - chr7.1:26100678-26100697 MS.gene023888:CDS 30.0%
!!! TCGGTTTATTTTGTTTGTGA+AGG - chr7.1:26101359-26101378 MS.gene023888:CDS 30.0%
AATCATTGATCGGAGACATA+TGG - chr7.1:26101144-26101163 MS.gene023888:CDS 35.0%
ATAATCACTTGGGCTTGTAA+TGG + chr7.1:26100838-26100857 None:intergenic 35.0%
ATGAGGATTATTCAGCTTGA+AGG + chr7.1:26101015-26101034 None:intergenic 35.0%
ATTCAGCTTGAAGGATACAA+TGG + chr7.1:26101006-26101025 None:intergenic 35.0%
CAAACTCCACATTCACAAAT+TGG - chr7.1:26101202-26101221 MS.gene023888:CDS 35.0%
CTAGTTCCAATTTGTGAATG+TGG + chr7.1:26101211-26101230 None:intergenic 35.0%
GAAGGATGGGATAATTGAAT+AGG + chr7.1:26100651-26100670 None:intergenic 35.0%
GGTTCTACCACAATTTCAAT+GGG - chr7.1:26101481-26101500 MS.gene023888:CDS 35.0%
TAATCACTTGGGCTTGTAAT+GGG + chr7.1:26100837-26100856 None:intergenic 35.0%
TCATTTGAGTCATCACAATG+AGG + chr7.1:26101032-26101051 None:intergenic 35.0%
! AAAGAGCAAGCCAATCATTT+TGG - chr7.1:26100898-26100917 MS.gene023888:CDS 35.0%
! ACTTTCAATGATGGAAGGAT+GGG + chr7.1:26100664-26100683 None:intergenic 35.0%
! ATGTGAATGATGGAAGCTTA+CGG - chr7.1:26101414-26101433 MS.gene023888:CDS 35.0%
! TACTTTCAATGATGGAAGGA+TGG + chr7.1:26100665-26100684 None:intergenic 35.0%
! TTGTTTCTCCAAGTTGGAAA+AGG - chr7.1:26101334-26101353 MS.gene023888:CDS 35.0%
!! ATTTTATTTGTCGGAAACCG+TGG - chr7.1:26101287-26101306 MS.gene023888:CDS 35.0%
!! TTTGTTCAAGTTTTCCACTC+TGG + chr7.1:26101238-26101257 None:intergenic 35.0%
AAAAAGTTGCATTCGCTCGA+AGG + chr7.1:26101459-26101478 None:intergenic 40.0%
AATCACTTGGGCTTGTAATG+GGG + chr7.1:26100836-26100855 None:intergenic 40.0%
AGGATACAATGGTATTTCCG+CGG + chr7.1:26100995-26101014 None:intergenic 40.0%
ATTGATCGGAGACATATGGA+TGG - chr7.1:26101148-26101167 MS.gene023888:CDS 40.0%
GCATAGAAGTTGAATCACCA+CGG + chr7.1:26101307-26101326 None:intergenic 40.0%
GGAGCTACACTGTACTTAAA+AGG + chr7.1:26100762-26100781 None:intergenic 40.0%
GGGTTCTACCACAATTTCAA+TGG - chr7.1:26101480-26101499 MS.gene023888:CDS 40.0%
TACAAGCCCAAGTGATTATG+TGG - chr7.1:26100839-26100858 MS.gene023888:CDS 40.0%
TTCCAACTTGGAGAAACAAG+AGG + chr7.1:26101333-26101352 None:intergenic 40.0%
! AACCGAATCCTTTTCCAACT+TGG + chr7.1:26101345-26101364 None:intergenic 40.0%
! CTCCAAGTTGGAAAAGGATT+CGG - chr7.1:26101340-26101359 MS.gene023888:CDS 40.0%
!!! CGAGCGAATGCAACTTTTTT+GGG - chr7.1:26101460-26101479 MS.gene023888:CDS 40.0%
!!! TCGAGCGAATGCAACTTTTT+TGG - chr7.1:26101459-26101478 MS.gene023888:CDS 40.0%
AACTTGGAGAAACAAGAGGC+TGG + chr7.1:26101329-26101348 None:intergenic 45.0%
ACCTCTCGAAGCTGTTTACA+AGG - chr7.1:26100794-26100813 MS.gene023888:CDS 45.0%
ACCTTGTAAACAGCTTCGAG+AGG + chr7.1:26100798-26100817 None:intergenic 45.0%
CGGCAACCACATAATCACTT+GGG + chr7.1:26100848-26100867 None:intergenic 45.0%
GTTGCCGCGATTTACAATTG+TGG - chr7.1:26100861-26100880 MS.gene023888:CDS 45.0%
TCGAGAGGTGGCAGAATAAT+GGG + chr7.1:26100783-26100802 None:intergenic 45.0%
TTCGAGAGGTGGCAGAATAA+TGG + chr7.1:26100784-26100803 None:intergenic 45.0%
TTGTAAACAGCTTCGAGAGG+TGG + chr7.1:26100795-26100814 None:intergenic 45.0%
! AGCCTCTTGTTTCTCCAAGT+TGG - chr7.1:26101328-26101347 MS.gene023888:CDS 45.0%
!! CCATGGTTGGCTTGCATTAA+CGG - chr7.1:26100707-26100726 MS.gene023888:CDS 45.0%
AAGCCAACCATGGCTACAAC+CGG + chr7.1:26100700-26100719 None:intergenic 50.0%
CCGTTAATGCAAGCCAACCA+TGG + chr7.1:26100710-26100729 None:intergenic 50.0%
GCGGCAACCACATAATCACT+TGG + chr7.1:26100849-26100868 None:intergenic 50.0%
TGCATTCGCTCGAAGGAAAG+TGG + chr7.1:26101452-26101471 None:intergenic 50.0%
TTGGAACTAGACGTCCAGAG+TGG - chr7.1:26101221-26101240 MS.gene023888:CDS 50.0%
! CTGGTATTTGCTGATAGCCG+CGG - chr7.1:26100975-26100994 MS.gene023888:CDS 50.0%
! TGTAATGGGGTCAGCAGACA+AGG + chr7.1:26100823-26100842 None:intergenic 50.0%
!! TTTTTGGCCGGTTGTAGCCA+TGG - chr7.1:26100690-26100709 MS.gene023888:CDS 50.0%
CGCGGCTATCAGCAAATACC+AGG + chr7.1:26100977-26100996 None:intergenic 55.0%
TGGCCGGTTGTAGCCATGGT+TGG - chr7.1:26100694-26100713 MS.gene023888:CDS 60.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 26100630 26101508 26100630 ID=MS.gene023888
chr7.1 mRNA 26100630 26101508 26100630 ID=MS.gene023888.t1;Parent=MS.gene023888
chr7.1 exon 26100630 26101508 26100630 ID=MS.gene023888.t1.exon1;Parent=MS.gene023888.t1
chr7.1 CDS 26100630 26101508 26100630 ID=cds.MS.gene023888.t1;Parent=MS.gene023888.t1
Gene Sequence

>MS.gene023888

ATGAGTGAGAAAGAGTACCCTATTCAATTATCCCATCCTTCCATCATTGAAAGTAAAATGTTTTTGGCCGGTTGTAGCCATGGTTGGCTTGCATTAACGGATGATAACAAAGCCATAACTCTAGTGAATCCTTTTAAGTACAGTGTAGCTCCCATTATTCTGCCACCTCTCGAAGCTGTTTACAAGGTTACCTTGTCTGCTGACCCCATTACAAGCCCAAGTGATTATGTGGTTGCCGCGATTTACAATTGTGGTTTTCTCGCTTTCAAAAGAGCAAGCCAATCATTTTGGATTTGTGTAAACAGAAATGAATTTCGTTTCACTCATGTTGTATTTTATAAAGGCCTGGTATTTGCTGATAGCCGCGGAAATACCATTGTATCCTTCAAGCTGAATAATCCTCATTGTGATGACTCAAATGACCCTAATTTTACTTGCTACGAGAAGATAGCTAGTACTCCATATATTGTATTAGGTGAACAGTATTATTATAGCTGCCATGTTTATTTCGTGAAATCATTGATCGGAGACATATGGATGGTGAGAAGATGTAATGTCGACAATCATTCATTCAAACTCCACATTCACAAATTGGAACTAGACGTCCAGAGTGGAAAACTTGAACAAATGAACAAACTTGAGAGTTTGGAAGACAACATTTTATTTGTCGGAAACCGTGGTGATTCAACTTCTATGCCAGCCTCTTGTTTCTCCAAGTTGGAAAAGGATTCGGTTTATTTTGTTTGTGAAGGTGATAAGAAGAATTTAGGGTTAGAGATCTATAATGTGAATGATGGAAGCTTACGGAGACAATCTTTACCACTTTCCTTCGAGCGAATGCAACTTTTTTGGGTTCTACCACAATTTCAATGGGATTGA

Protein sequence

>MS.gene023888.t1

MSEKEYPIQLSHPSIIESKMFLAGCSHGWLALTDDNKAITLVNPFKYSVAPIILPPLEAVYKVTLSADPITSPSDYVVAAIYNCGFLAFKRASQSFWICVNRNEFRFTHVVFYKGLVFADSRGNTIVSFKLNNPHCDDSNDPNFTCYEKIASTPYIVLGEQYYYSCHVYFVKSLIGDIWMVRRCNVDNHSFKLHIHKLELDVQSGKLEQMNKLESLEDNILFVGNRGDSTSMPASCFSKLEKDSVYFVCEGDKKNLGLEIYNVNDGSLRRQSLPLSFERMQLFWVLPQFQWD