AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene27748

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene27748.t1 MTR_7g077620 67.910 268 81 4 5 270 105 369 8.92e-123 355
MS.gene27748.t1 MTR_7g077660 69.004 271 77 5 5 273 103 368 1.97e-120 349
MS.gene27748.t1 MTR_7g077650 67.148 277 75 4 5 273 104 372 3.44e-119 346
MS.gene27748.t1 MTR_7g076110 56.835 278 109 5 5 273 38 313 1.82e-101 298
MS.gene27748.t1 MTR_7g076100 64.017 239 79 4 38 273 66 300 2.62e-96 285
MS.gene27748.t1 MTR_1g108740 44.526 274 123 11 3 271 95 344 4.11e-55 181
MS.gene27748.t1 MTR_5g038260 41.472 299 134 12 5 273 96 383 1.26e-52 176
MS.gene27748.t1 MTR_1g064570 37.812 320 139 14 3 273 92 400 3.84e-46 159
MS.gene27748.t1 MTR_5g038230 38.644 295 118 11 5 271 94 353 2.54e-45 156
MS.gene27748.t1 MTR_5g082770 46.009 213 89 7 5 205 90 288 1.28e-42 147
MS.gene27748.t1 MTR_7g076130 60.317 126 45 2 68 190 25 148 2.15e-42 142
MS.gene27748.t1 MTR_5g082780 40.351 228 103 8 15 229 2 209 1.92e-37 132
MS.gene27748.t1 MTR_1g016150 48.936 94 45 3 3 95 104 195 3.39e-21 89.7
MS.gene27748.t1 MTR_6g023955 46.753 77 40 1 41 116 74 150 4.04e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 51 sgRNAs with CRISPR-Local

Find 61 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAAGGTGATAAGAAGAATTT+AGG 0.132686 7.3:-29195430 MS.gene27748:CDS
AAAGAGCAAGCCAATCATTT+TGG 0.202770 7.3:-29195909 MS.gene27748:CDS
CAAACTCCACATTCACAAAT+TGG 0.228464 7.3:-29195605 MS.gene27748:CDS
TTCTCGTAGTAAGTAAAATT+AGG 0.242633 7.3:+29195754 None:intergenic
AATGAACAAACTTGAGAGTT+TGG 0.291432 7.3:-29195551 MS.gene27748:CDS
TGTTCACCTAATACAATATA+TGG 0.299029 7.3:+29195718 None:intergenic
GAAGCTACACTGTACTTAAA+AGG 0.308061 7.3:+29196048 None:intergenic
AGTACTCCATATATTGTATT+AGG 0.310368 7.3:-29195724 MS.gene27748:CDS
CCATGGTTGGCTTGCATTAA+CGG 0.321484 7.3:-29196100 MS.gene27748:CDS
TAATCACTTGGGCTTGTAAT+GGG 0.338599 7.3:+29195973 None:intergenic
CTCCAAGTTGGAAAAGGATT+CGG 0.375437 7.3:-29195467 MS.gene27748:CDS
TTACACAAATCCAAAATGAT+TGG 0.383794 7.3:+29195899 None:intergenic
AAAAGGATTCACTAGAGTTA+TGG 0.384998 7.3:+29196065 None:intergenic
TCTCGTAGTAAGTAAAATTA+GGG 0.391917 7.3:+29195755 None:intergenic
AGCCTCTTGTTTCTCCAAGT+TGG 0.404761 7.3:-29195479 MS.gene27748:CDS
GGGTTCTACCACAATTTCAA+TGG 0.408660 7.3:-29195327 MS.gene27748:CDS
AAGGTGATAAGAAGAATTTA+GGG 0.425808 7.3:-29195429 MS.gene27748:CDS
TTCTAGAGGTGGCAGAATAA+TGG 0.427745 7.3:+29196026 None:intergenic
TTGTTTCTCCAAGTTGGAAA+AGG 0.437802 7.3:-29195473 MS.gene27748:CDS
AAGCCAACCATGGCTACAAC+CGG 0.461155 7.3:+29196110 None:intergenic
ATAATCACTTGGGCTTGTAA+TGG 0.476686 7.3:+29195972 None:intergenic
GGTTCTACCACAATTTCAAT+GGG 0.480142 7.3:-29195326 MS.gene27748:CDS
ACCTCTAGAAGCTGTTTACA+AGG 0.481405 7.3:-29196013 MS.gene27748:CDS
AATCATTGACCGGAGACATA+TGG 0.484616 7.3:-29195663 MS.gene27748:CDS
TGGCCGGTTGTAGCCATGGT+TGG 0.485159 7.3:-29196113 MS.gene27748:CDS
GAGATCTATAATGTGAATGA+TGG 0.493399 7.3:-29195403 MS.gene27748:CDS
ACGAGGATTATTGAGCTTGA+AGG 0.494091 7.3:+29195795 None:intergenic
TACAAGCCCAAGTGATTATG+TGG 0.499442 7.3:-29195968 MS.gene27748:CDS
CGCGTCTATCAGCAAATACC+AGG 0.511958 7.3:+29195833 None:intergenic
TATTTCGTGAAATCATTGAC+CGG 0.532294 7.3:-29195673 MS.gene27748:CDS
TCTCACCATCCATATGTCTC+CGG 0.543961 7.3:+29195654 None:intergenic
GCTGCAACCACATAATCACT+TGG 0.549128 7.3:+29195961 None:intergenic
CTAGTTCCAATTTGTGAATG+TGG 0.551800 7.3:+29195599 None:intergenic
TGCATTCGCTCGAAGGAAAG+TGG 0.562548 7.3:+29195358 None:intergenic
TGTAATGGGGTCAGCAGACA+AGG 0.568289 7.3:+29195987 None:intergenic
GGTCAATCCCATTGAAATTG+TGG 0.574786 7.3:+29195319 None:intergenic
CCGTTAATGCAAGCCAACCA+TGG 0.592476 7.3:+29196100 None:intergenic
TTCCAACTTGGAGAAACAAG+AGG 0.597328 7.3:+29195477 None:intergenic
GTTGCAGCGATTTACAATTG+TGG 0.603650 7.3:-29195946 MS.gene27748:CDS
AATCACTTGGGCTTGTAATG+GGG 0.606028 7.3:+29195974 None:intergenic
AACTTGGAGAAACAAGAGGC+TGG 0.606698 7.3:+29195481 None:intergenic
ATTGAGCTTGAAGGATACAA+TGG 0.615993 7.3:+29195804 None:intergenic
CTGGTATTTGCTGATAGACG+CGG 0.630780 7.3:-29195832 MS.gene27748:CDS
CTGCAACCACATAATCACTT+GGG 0.636696 7.3:+29195962 None:intergenic
ACCTTGTAAACAGCTTCTAG+AGG 0.643596 7.3:+29196012 None:intergenic
TTGTAAACAGCTTCTAGAGG+TGG 0.647947 7.3:+29196015 None:intergenic
ATGATTTCACGAAATAAACA+TGG 0.673183 7.3:+29195680 None:intergenic
GCATAGAAGTTGAATCACCA+CGG 0.688735 7.3:+29195503 None:intergenic
ATTGACCGGAGACATATGGA+TGG 0.696827 7.3:-29195659 MS.gene27748:CDS
TTGGAACTAGACGTCCAGAG+TGG 0.702846 7.3:-29195586 MS.gene27748:CDS
TCATTTGAGTCATCACAACG+AGG 0.749759 7.3:+29195778 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ACTCATGTTGTATTTTATAA+AGG - chr7.3:29195585-29195604 MS.gene27748:CDS 20.0%
! AAGGTGATAAGAAGAATTTA+GGG - chr7.3:29196012-29196031 MS.gene27748:CDS 25.0%
! AGTACTCCATATATTGTATT+AGG - chr7.3:29195717-29195736 MS.gene27748:CDS 25.0%
! ATGATTTCACGAAATAAACA+TGG + chr7.3:29195764-29195783 None:intergenic 25.0%
! TCTCGTAGTAAGTAAAATTA+GGG + chr7.3:29195689-29195708 None:intergenic 25.0%
! TGTTCACCTAATACAATATA+TGG + chr7.3:29195726-29195745 None:intergenic 25.0%
! TTACACAAATCCAAAATGAT+TGG + chr7.3:29195545-29195564 None:intergenic 25.0%
! TTCTCGTAGTAAGTAAAATT+AGG + chr7.3:29195690-29195709 None:intergenic 25.0%
!!! GAAGACAACATTTTATTTGT+CGG - chr7.3:29195912-29195931 MS.gene27748:CDS 25.0%
AAAAGGATTCACTAGAGTTA+TGG + chr7.3:29195379-29195398 None:intergenic 30.0%
AATGAACAAACTTGAGAGTT+TGG - chr7.3:29195890-29195909 MS.gene27748:CDS 30.0%
GAAGGTGATAAGAAGAATTT+AGG - chr7.3:29196011-29196030 MS.gene27748:CDS 30.0%
GAGATCTATAATGTGAATGA+TGG - chr7.3:29196038-29196057 MS.gene27748:CDS 30.0%
TATTTCGTGAAATCATTGAC+CGG - chr7.3:29195768-29195787 MS.gene27748:CDS 30.0%
! TGTTGTATTTTATAAAGGCC+TGG - chr7.3:29195590-29195609 MS.gene27748:CDS 30.0%
!!! TCGGTTTATTTTGTTTGTGA+AGG - chr7.3:29195993-29196012 MS.gene27748:CDS 30.0%
ATAATCACTTGGGCTTGTAA+TGG + chr7.3:29195472-29195491 None:intergenic 35.0%
ATTGAGCTTGAAGGATACAA+TGG + chr7.3:29195640-29195659 None:intergenic 35.0%
CAAACTCCACATTCACAAAT+TGG - chr7.3:29195836-29195855 MS.gene27748:CDS 35.0%
CTAGTTCCAATTTGTGAATG+TGG + chr7.3:29195845-29195864 None:intergenic 35.0%
GAAGCTACACTGTACTTAAA+AGG + chr7.3:29195396-29195415 None:intergenic 35.0%
GGTTCTACCACAATTTCAAT+GGG - chr7.3:29196115-29196134 MS.gene27748:CDS 35.0%
TAATCACTTGGGCTTGTAAT+GGG + chr7.3:29195471-29195490 None:intergenic 35.0%
! AAAGAGCAAGCCAATCATTT+TGG - chr7.3:29195532-29195551 MS.gene27748:CDS 35.0%
! TTGTTTCTCCAAGTTGGAAA+AGG - chr7.3:29195968-29195987 MS.gene27748:CDS 35.0%
!! ATTTTATTTGTCGGAAACCG+TGG - chr7.3:29195921-29195940 MS.gene27748:CDS 35.0%
!! TTTGTTCAAGTTTTCCACTC+TGG + chr7.3:29195872-29195891 None:intergenic 35.0%
AAAAAGTTGCATTCGCTCGA+AGG + chr7.3:29196093-29196112 None:intergenic 40.0%
AATCACTTGGGCTTGTAATG+GGG + chr7.3:29195470-29195489 None:intergenic 40.0%
AATCATTGACCGGAGACATA+TGG - chr7.3:29195778-29195797 MS.gene27748:CDS 40.0%
ACCTTGTAAACAGCTTCTAG+AGG + chr7.3:29195432-29195451 None:intergenic 40.0%
ACGAGGATTATTGAGCTTGA+AGG + chr7.3:29195649-29195668 None:intergenic 40.0%
CTGCAACCACATAATCACTT+GGG + chr7.3:29195482-29195501 None:intergenic 40.0%
GCATAGAAGTTGAATCACCA+CGG + chr7.3:29195941-29195960 None:intergenic 40.0%
GGGTTCTACCACAATTTCAA+TGG - chr7.3:29196114-29196133 MS.gene27748:CDS 40.0%
GTTGCAGCGATTTACAATTG+TGG - chr7.3:29195495-29195514 MS.gene27748:CDS 40.0%
TACAAGCCCAAGTGATTATG+TGG - chr7.3:29195473-29195492 MS.gene27748:CDS 40.0%
TCATTTGAGTCATCACAACG+AGG + chr7.3:29195666-29195685 None:intergenic 40.0%
TTCCAACTTGGAGAAACAAG+AGG + chr7.3:29195967-29195986 None:intergenic 40.0%
! AACCGAATCCTTTTCCAACT+TGG + chr7.3:29195979-29195998 None:intergenic 40.0%
! ACCTCTAGAAGCTGTTTACA+AGG - chr7.3:29195428-29195447 MS.gene27748:CDS 40.0%
! CTCCAAGTTGGAAAAGGATT+CGG - chr7.3:29195974-29195993 MS.gene27748:CDS 40.0%
! TTCTAGAGGTGGCAGAATAA+TGG + chr7.3:29195418-29195437 None:intergenic 40.0%
! TTGTAAACAGCTTCTAGAGG+TGG + chr7.3:29195429-29195448 None:intergenic 40.0%
!!! CGAGCGAATGCAACTTTTTT+GGG - chr7.3:29196094-29196113 MS.gene27748:CDS 40.0%
!!! TCGAGCGAATGCAACTTTTT+TGG - chr7.3:29196093-29196112 MS.gene27748:CDS 40.0%
AACTTGGAGAAACAAGAGGC+TGG + chr7.3:29195963-29195982 None:intergenic 45.0%
ATTGACCGGAGACATATGGA+TGG - chr7.3:29195782-29195801 MS.gene27748:CDS 45.0%
GCTGCAACCACATAATCACT+TGG + chr7.3:29195483-29195502 None:intergenic 45.0%
TCTCACCATCCATATGTCTC+CGG + chr7.3:29195790-29195809 None:intergenic 45.0%
! AGCCTCTTGTTTCTCCAAGT+TGG - chr7.3:29195962-29195981 MS.gene27748:CDS 45.0%
! CTGGTATTTGCTGATAGACG+CGG - chr7.3:29195609-29195628 MS.gene27748:CDS 45.0%
!! CCATGGTTGGCTTGCATTAA+CGG - chr7.3:29195341-29195360 MS.gene27748:CDS 45.0%
AAGCCAACCATGGCTACAAC+CGG + chr7.3:29195334-29195353 None:intergenic 50.0%
CCGTTAATGCAAGCCAACCA+TGG + chr7.3:29195344-29195363 None:intergenic 50.0%
CGCGTCTATCAGCAAATACC+AGG + chr7.3:29195611-29195630 None:intergenic 50.0%
TGCATTCGCTCGAAGGAAAG+TGG + chr7.3:29196086-29196105 None:intergenic 50.0%
TTGGAACTAGACGTCCAGAG+TGG - chr7.3:29195855-29195874 MS.gene27748:CDS 50.0%
! TGTAATGGGGTCAGCAGACA+AGG + chr7.3:29195457-29195476 None:intergenic 50.0%
!! TTTTTGGCCGGTTGTAGCCA+TGG - chr7.3:29195324-29195343 MS.gene27748:CDS 50.0%
TGGCCGGTTGTAGCCATGGT+TGG - chr7.3:29195328-29195347 MS.gene27748:CDS 60.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 29195321 29196142 29195321 ID=MS.gene27748
chr7.3 mRNA 29195321 29196142 29195321 ID=MS.gene27748.t1;Parent=MS.gene27748
chr7.3 exon 29195321 29196142 29195321 ID=MS.gene27748.t1.exon1;Parent=MS.gene27748.t1
chr7.3 CDS 29195321 29196142 29195321 ID=cds.MS.gene27748.t1;Parent=MS.gene27748.t1
Gene Sequence

>MS.gene27748

ATGTTTTTGGCCGGTTGTAGCCATGGTTGGCTTGCATTAACGGATGATAACAAAGCCATAACTCTAGTGAATCCTTTTAAGTACAGTGTAGCTTCCATTATTCTGCCACCTCTAGAAGCTGTTTACAAGGTTACCTTGTCTGCTGACCCCATTACAAGCCCAAGTGATTATGTGGTTGCAGCGATTTACAATTGTGGTTTTCTCGCTTTCAAAAGAGCAAGCCAATCATTTTGGATTTGTGTAAACAGAAATGAATTTCATTTCACTCATGTTGTATTTTATAAAGGCCTGGTATTTGCTGATAGACGCGGAAATACCATTGTATCCTTCAAGCTCAATAATCCTCGTTGTGATGACTCAAATGACCCTAATTTTACTTACTACGAGAAGATAGCTAGTACTCCATATATTGTATTAGGTGAACAGTATTATTATAGCTGCCATGTTTATTTCGTGAAATCATTGACCGGAGACATATGGATGGTGAGAAGATGTAATGTCGACAATCATTCGTTCAAACTCCACATTCACAAATTGGAACTAGACGTCCAGAGTGGAAAACTTGAACAAATGAACAAACTTGAGAGTTTGGAAGACAACATTTTATTTGTCGGAAACCGTGGTGATTCAACTTCTATGCCAGCCTCTTGTTTCTCCAAGTTGGAAAAGGATTCGGTTTATTTTGTTTGTGAAGGTGATAAGAAGAATTTAGGGTTAGAGATCTATAATGTGAATGATGGAAGCTTACAGAGACAATCTTTACCACTTTCCTTCGAGCGAATGCAACTTTTTTGGGTTCTACCACAATTTCAATGGGATTGA
Protein sequence

>MS.gene27748.t1

MFLAGCSHGWLALTDDNKAITLVNPFKYSVASIILPPLEAVYKVTLSADPITSPSDYVVAAIYNCGFLAFKRASQSFWICVNRNEFHFTHVVFYKGLVFADRRGNTIVSFKLNNPRCDDSNDPNFTYYEKIASTPYIVLGEQYYYSCHVYFVKSLTGDIWMVRRCNVDNHSFKLHIHKLELDVQSGKLEQMNKLESLEDNILFVGNRGDSTSMPASCFSKLEKDSVYFVCEGDKKNLGLEIYNVNDGSLQRQSLPLSFERMQLFWVLPQFQWD