AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene58429


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene58429.t1 MTR_0140s0010 59.361 219 34 6 30 210 1 202 8.94e-71 215
MS.gene58429.t1 MTR_3g435550 49.275 138 57 4 82 210 5 138 8.03e-34 119
MS.gene58429.t1 MTR_3g091700 57.534 73 28 2 133 203 159 230 4.44e-18 80.1
MS.gene58429.t1 MTR_5g024070 36.220 127 61 4 85 202 169 284 3.12e-17 79.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene58429.t1 AT1G18790 68.966 87 26 1 125 210 125 211 1.03e-32 119
MS.gene58429.t1 AT1G74480 38.967 213 110 6 16 210 8 218 4.02e-31 115
MS.gene58429.t1 AT5G66990 58.242 91 36 2 122 210 153 243 6.94e-26 101
MS.gene58429.t1 AT5G53040 61.905 63 24 0 133 195 153 215 1.15e-19 84.3
MS.gene58429.t1 AT4G35590 34.483 116 75 1 92 207 157 271 1.10e-15 74.7
MS.gene58429.t1 AT4G35590 34.483 116 75 1 92 207 207 321 1.41e-15 74.7
MS.gene58429.t1 AT5G16100 40.909 88 50 1 125 210 351 438 2.24e-14 71.2

Find 50 sgRNAs with CRISPR-Local

Find 94 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTCTTGCAGCTTGTGTTAT+TGG 0.135392 8.3:+15881016 None:intergenic
TGACTTACATGTTAGGAAAT+TGG 0.240258 8.3:+15881633 None:intergenic
GTTGATGGATATCGAGAAAT+TGG 0.245834 8.3:-15880723 MS.gene58429:CDS
AATTGGCGGTTATATGAAAA+TGG 0.251270 8.3:+15881650 None:intergenic
AACCTTGATCAATAATATTC+AGG 0.325902 8.3:-15880906 MS.gene58429:intron
CTGCAGACGACTATGAAATT+TGG 0.367816 8.3:-15881228 MS.gene58429:intron
ACTTAGTGTTGAAAAGTTGA+TGG 0.379342 8.3:-15880738 MS.gene58429:CDS
TATTATTGATCAAGGTTTGC+AGG 0.383508 8.3:+15880912 None:intergenic
ACCCATACACAATGATGGTT+TGG 0.385554 8.3:-15881488 MS.gene58429:CDS
TTCCAAACCATCATTGTGTA+TGG 0.398088 8.3:+15881486 None:intergenic
ACACAATGATGGTTTGGAAC+TGG 0.400074 8.3:-15881482 MS.gene58429:CDS
AGTTTCATGACTTACATGTT+AGG 0.403480 8.3:+15881626 None:intergenic
TACCTGAATATTATTGATCA+AGG 0.420609 8.3:+15880904 None:intergenic
TATGGTATGGAGAAAGGATT+TGG 0.421835 8.3:-15881205 MS.gene58429:CDS
TGATGATAACCTTCCAGCCT+TGG 0.426088 8.3:+15881397 None:intergenic
TGAAATTAACAAAGAGGTTG+TGG 0.431311 8.3:-15881125 MS.gene58429:CDS
GGCATTGGTTCAATGTATAG+AGG 0.437542 8.3:+15881418 None:intergenic
ATTTGGTATGGTATGGAGAA+AGG 0.442668 8.3:-15881211 MS.gene58429:CDS
TGTATAGAGGGTGATGATGA+GGG 0.456423 8.3:+15881431 None:intergenic
AGAGTATGCCACTTACTTGT+TGG 0.466970 8.3:-15881700 MS.gene58429:CDS
CATTGAACCAATGCCAAGGC+TGG 0.480155 8.3:-15881410 MS.gene58429:CDS
CTATGAAATTTGGTATGGTA+TGG 0.481213 8.3:-15881218 MS.gene58429:CDS
GTTGCAGGAGCTAGGGAAAG+AGG 0.496134 8.3:-15880768 MS.gene58429:intron
TGGATTTGGTTGCAGGAGCT+AGG 0.503102 8.3:-15880776 MS.gene58429:intron
GGAGTGGAGAGGATTAGTGA+TGG 0.512454 8.3:-15881088 MS.gene58429:CDS
GGATTTGGTTGCAGGAGCTA+GGG 0.512821 8.3:-15880775 MS.gene58429:intron
GGAGGTAAAGCTAGAAGGAG+TGG 0.514082 8.3:-15881104 MS.gene58429:CDS
ATGTATAGAGGGTGATGATG+AGG 0.517675 8.3:+15881430 None:intergenic
GTTGTGGAGGTAAAGCTAGA+AGG 0.522008 8.3:-15881109 MS.gene58429:CDS
TAAAAGCTCCAACAAGTAAG+TGG 0.525627 8.3:+15881692 None:intergenic
TAACCTTCCAGCCTTGGCAT+TGG 0.526844 8.3:+15881403 None:intergenic
TATTCACCCATACACAATGA+TGG 0.527857 8.3:-15881493 MS.gene58429:CDS
GGATATCGAGAAATTGGAAG+AGG 0.537710 8.3:-15880717 MS.gene58429:CDS
GACGACTATGAAATTTGGTA+TGG 0.546215 8.3:-15881223 MS.gene58429:CDS
CTTACATGTTAGGAAATTGG+CGG 0.547072 8.3:+15881636 None:intergenic
ATTGGAAGAGGAAATGAAGC+TGG 0.556172 8.3:-15880705 MS.gene58429:intron
TAAAGCTAGAAGGAGTGGAG+AGG 0.578999 8.3:-15881099 MS.gene58429:CDS
GAACCAATGCCAAGGCTGGA+AGG 0.579018 8.3:-15881406 MS.gene58429:intron
GTATAGAGGGTGATGATGAG+GGG 0.582910 8.3:+15881432 None:intergenic
TCCAAACCATCATTGTGTAT+GGG 0.593952 8.3:+15881487 None:intergenic
GCATTGGTTCAATGTATAGA+GGG 0.595733 8.3:+15881419 None:intergenic
TGGAAATGAAATTAACAAAG+AGG 0.597270 8.3:-15881131 MS.gene58429:CDS
AGCTGCAAGAGAACTGAATG+TGG 0.601755 8.3:-15881005 MS.gene58429:CDS
GTAGGGAGTTGGGTATTCGT+AGG 0.615855 8.3:-15880958 MS.gene58429:CDS
AATTAACAAAGAGGTTGTGG+AGG 0.641037 8.3:-15881122 MS.gene58429:CDS
GTAATACAAAGAATTTGTCA+AGG 0.643091 8.3:-15881066 MS.gene58429:CDS
GCTGCAAGAGAACTGAATGT+GGG 0.643443 8.3:-15881004 MS.gene58429:CDS
GGGAGTTGGGTATTCGTAGG+TGG 0.654663 8.3:-15880955 MS.gene58429:CDS
CAGGAGCTAGGGAAAGAGGA+TGG 0.660990 8.3:-15880764 MS.gene58429:CDS
TATACATTGAACCAATGCCA+AGG 0.667387 8.3:-15881414 MS.gene58429:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTATTCTCATTTTAAATTT+TGG - chr8.3:15880865-15880884 MS.gene58429:intron 10.0%
!!! AATTTATTTAATTTTTGCAG+TGG - chr8.3:15880662-15880681 MS.gene58429:intron 15.0%
!!! AGTTTTTTGTTTTTGTTTAT+GGG - chr8.3:15881640-15881659 MS.gene58429:intron 15.0%
!!! TAGTTTTTTGTTTTTGTTTA+TGG - chr8.3:15881639-15881658 MS.gene58429:intron 15.0%
!! ATGTACATTGATAAAAAAAC+AGG + chr8.3:15881695-15881714 None:intergenic 20.0%
!! CATATAAAAATACTGAGATA+TGG + chr8.3:15881155-15881174 None:intergenic 20.0%
!! CATGCAAAAATTTATTACTT+CGG - chr8.3:15880620-15880639 MS.gene58429:intron 20.0%
!!! AACATTATGTTGATTGTTTA+TGG - chr8.3:15881378-15881397 MS.gene58429:intron 20.0%
!!! GTTTTTTGTTTTTGTTTATG+GGG - chr8.3:15881641-15881660 MS.gene58429:CDS 20.0%
! AACCTTGATCAATAATATTC+AGG - chr8.3:15881285-15881304 MS.gene58429:intron 25.0%
! CTTATAAATAATTGGGAATG+TGG + chr8.3:15880833-15880852 None:intergenic 25.0%
! GTAATACAAAGAATTTGTCA+AGG - chr8.3:15881125-15881144 MS.gene58429:CDS 25.0%
! TACCTGAATATTATTGATCA+AGG + chr8.3:15881290-15881309 None:intergenic 25.0%
! TGAGTATATTATGTTGGATT+TGG - chr8.3:15881401-15881420 MS.gene58429:intron 25.0%
! TGGAAATGAAATTAACAAAG+AGG - chr8.3:15881060-15881079 MS.gene58429:CDS 25.0%
! TGTTCTTCTGATTAATATTG+TGG - chr8.3:15880940-15880959 MS.gene58429:CDS 25.0%
! TTACAAGAAAAGAAAGCTTA+TGG - chr8.3:15881579-15881598 MS.gene58429:intron 25.0%
! TTATGGTGAGTATATTATGT+TGG - chr8.3:15881395-15881414 MS.gene58429:intron 25.0%
!! AAGCTTTCTTTTCTTGTAAT+TGG + chr8.3:15881578-15881597 None:intergenic 25.0%
!! CGAAGTAATAAATTTTTGCA+TGG + chr8.3:15880622-15880641 None:intergenic 25.0%
!!! CTCATTTTAAATTTTGGTTG+CGG - chr8.3:15880871-15880890 MS.gene58429:intron 25.0%
AATTGCAAGATCATACCAAA+AGG - chr8.3:15881530-15881549 MS.gene58429:intron 30.0%
AATTGGCGGTTATATGAAAA+TGG + chr8.3:15880544-15880563 None:intergenic 30.0%
ACATTTGAAAAAACGGTGTA+GGG - chr8.3:15881216-15881235 MS.gene58429:CDS 30.0%
AGTTTCATGACTTACATGTT+AGG + chr8.3:15880568-15880587 None:intergenic 30.0%
CTATGAAATTTGGTATGGTA+TGG - chr8.3:15880973-15880992 MS.gene58429:CDS 30.0%
TATTATTGATCAAGGTTTGC+AGG + chr8.3:15881282-15881301 None:intergenic 30.0%
TGAAATTAACAAAGAGGTTG+TGG - chr8.3:15881066-15881085 MS.gene58429:CDS 30.0%
TGACTTACATGTTAGGAAAT+TGG + chr8.3:15880561-15880580 None:intergenic 30.0%
TGATCTTGCAATTGTATATC+TGG + chr8.3:15881523-15881542 None:intergenic 30.0%
! ACTTAGTGTTGAAAAGTTGA+TGG - chr8.3:15881453-15881472 MS.gene58429:CDS 30.0%
!! GCTTAGACAACATTGTTTTA+AGG - chr8.3:15881552-15881571 MS.gene58429:intron 30.0%
!!! GTTTTAAGGCATATGGATTA+TGG - chr8.3:15881615-15881634 MS.gene58429:intron 30.0%
!!! TGATCATGTTTTAAGGCATA+TGG - chr8.3:15881608-15881627 MS.gene58429:intron 30.0%
!!! TTTGTTTTTGTTTATGGGGT+GGG - chr8.3:15881645-15881664 MS.gene58429:CDS 30.0%
!!! TTTTGTTTTTGTTTATGGGG+TGG - chr8.3:15881644-15881663 MS.gene58429:CDS 30.0%
AATTAACAAAGAGGTTGTGG+AGG - chr8.3:15881069-15881088 MS.gene58429:CDS 35.0%
ATTTGGTATGGTATGGAGAA+AGG - chr8.3:15880980-15880999 MS.gene58429:CDS 35.0%
CACATTTGAAAAAACGGTGT+AGG - chr8.3:15881215-15881234 MS.gene58429:CDS 35.0%
CTTACATGTTAGGAAATTGG+CGG + chr8.3:15880558-15880577 None:intergenic 35.0%
GACGACTATGAAATTTGGTA+TGG - chr8.3:15880968-15880987 MS.gene58429:CDS 35.0%
GCCTCACACATTTGAAAAAA+CGG - chr8.3:15881209-15881228 MS.gene58429:CDS 35.0%
TAAAAGCTCCAACAAGTAAG+TGG + chr8.3:15880502-15880521 None:intergenic 35.0%
TATACATTGAACCAATGCCA+AGG - chr8.3:15880777-15880796 MS.gene58429:intron 35.0%
TATGGTATGGAGAAAGGATT+TGG - chr8.3:15880986-15881005 MS.gene58429:CDS 35.0%
TATTCACCCATACACAATGA+TGG - chr8.3:15880698-15880717 MS.gene58429:intron 35.0%
TCCAAACCATCATTGTGTAT+GGG + chr8.3:15880707-15880726 None:intergenic 35.0%
TTCCAAACCATCATTGTGTA+TGG + chr8.3:15880708-15880727 None:intergenic 35.0%
! ACAATGTTGTCTAAGCCTTT+TGG + chr8.3:15881548-15881567 None:intergenic 35.0%
! ATTATGTTGGATTTGGTTGC+AGG - chr8.3:15881408-15881427 MS.gene58429:CDS 35.0%
! GATCAGCTGATCATGTTTTA+AGG - chr8.3:15881601-15881620 MS.gene58429:intron 35.0%
! GCGTTTGATTCTGAAAAAAG+TGG - chr8.3:15881040-15881059 MS.gene58429:CDS 35.0%
! GTTGATGGATATCGAGAAAT+TGG - chr8.3:15881468-15881487 MS.gene58429:CDS 35.0%
!! GCATTGGTTCAATGTATAGA+GGG + chr8.3:15880775-15880794 None:intergenic 35.0%
!!! ACCGTTTTTTCAAATGTGTG+AGG + chr8.3:15881213-15881232 None:intergenic 35.0%
AAAAAACGGTGTAGGGAGTT+GGG - chr8.3:15881223-15881242 MS.gene58429:CDS 40.0%
ACCCATACACAATGATGGTT+TGG - chr8.3:15880703-15880722 MS.gene58429:intron 40.0%
ATTGGAAGAGGAAATGAAGC+TGG - chr8.3:15881486-15881505 MS.gene58429:CDS 40.0%
CTGCAGACGACTATGAAATT+TGG - chr8.3:15880963-15880982 MS.gene58429:CDS 40.0%
GGATATCGAGAAATTGGAAG+AGG - chr8.3:15881474-15881493 MS.gene58429:CDS 40.0%
TCTCTTGCAGCTTGTGTTAT+TGG + chr8.3:15881178-15881197 None:intergenic 40.0%
TTGGGAATGTGGCATGTATA+TGG + chr8.3:15880822-15880841 None:intergenic 40.0%
! ACACAATGATGGTTTGGAAC+TGG - chr8.3:15880709-15880728 MS.gene58429:CDS 40.0%
! AGAGTATGCCACTTACTTGT+TGG - chr8.3:15880491-15880510 MS.gene58429:intron 40.0%
! AGGCTCATGAGTTTTCTATG+GGG + chr8.3:15881262-15881281 None:intergenic 40.0%
! ATGTATAGAGGGTGATGATG+AGG + chr8.3:15880764-15880783 None:intergenic 40.0%
! CAGGCTCATGAGTTTTCTAT+GGG + chr8.3:15881263-15881282 None:intergenic 40.0%
! TGTATAGAGGGTGATGATGA+GGG + chr8.3:15880763-15880782 None:intergenic 40.0%
!! GGCATTGGTTCAATGTATAG+AGG + chr8.3:15880776-15880795 None:intergenic 40.0%
AGCTGCAAGAGAACTGAATG+TGG - chr8.3:15881186-15881205 MS.gene58429:CDS 45.0%
GAAAAAACGGTGTAGGGAGT+TGG - chr8.3:15881222-15881241 MS.gene58429:CDS 45.0%
GCTGCAAGAGAACTGAATGT+GGG - chr8.3:15881187-15881206 MS.gene58429:CDS 45.0%
GTTGTGGAGGTAAAGCTAGA+AGG - chr8.3:15881082-15881101 MS.gene58429:CDS 45.0%
TAAAGCTAGAAGGAGTGGAG+AGG - chr8.3:15881092-15881111 MS.gene58429:CDS 45.0%
TGATGATAACCTTCCAGCCT+TGG + chr8.3:15880797-15880816 None:intergenic 45.0%
! GCAGGCTCATGAGTTTTCTA+TGG + chr8.3:15881264-15881283 None:intergenic 45.0%
! GTATAGAGGGTGATGATGAG+GGG + chr8.3:15880762-15880781 None:intergenic 45.0%
!! ATATAAACTTATAAATAATT+GGG + chr8.3:15880840-15880859 None:intergenic 5.0%
!! TATATAAACTTATAAATAAT+TGG + chr8.3:15880841-15880860 None:intergenic 5.0%
!!! GTTATTATTATTATTATTTT+TGG + chr8.3:15881361-15881380 None:intergenic 5.0%
AGAGGAAATGAAGCTGGTGG+AGG - chr8.3:15881492-15881511 MS.gene58429:CDS 50.0%
ATGGGGTGGGCATGTTATTG+TGG - chr8.3:15881658-15881677 MS.gene58429:CDS 50.0%
CATTGAACCAATGCCAAGGC+TGG - chr8.3:15880781-15880800 MS.gene58429:intron 50.0%
GGAAGAGGAAATGAAGCTGG+TGG - chr8.3:15881489-15881508 MS.gene58429:CDS 50.0%
GGAGGTAAAGCTAGAAGGAG+TGG - chr8.3:15881087-15881106 MS.gene58429:CDS 50.0%
GTAGGGAGTTGGGTATTCGT+AGG - chr8.3:15881233-15881252 MS.gene58429:intron 50.0%
TAACCTTCCAGCCTTGGCAT+TGG + chr8.3:15880791-15880810 None:intergenic 50.0%
! GGAGTGGAGAGGATTAGTGA+TGG - chr8.3:15881103-15881122 MS.gene58429:CDS 50.0%
! GGATTTGGTTGCAGGAGCTA+GGG - chr8.3:15881416-15881435 MS.gene58429:CDS 50.0%
! TGGATTTGGTTGCAGGAGCT+AGG - chr8.3:15881415-15881434 MS.gene58429:CDS 50.0%
CAGGAGCTAGGGAAAGAGGA+TGG - chr8.3:15881427-15881446 MS.gene58429:CDS 55.0%
GAACCAATGCCAAGGCTGGA+AGG - chr8.3:15880785-15880804 MS.gene58429:intron 55.0%
GGGAGTTGGGTATTCGTAGG+TGG - chr8.3:15881236-15881255 MS.gene58429:intron 55.0%
GTTGCAGGAGCTAGGGAAAG+AGG - chr8.3:15881423-15881442 MS.gene58429:CDS 55.0%


Chromosome Type Strat End Strand Name
chr8.3 gene 15880487 15881726 15880487 ID=MS.gene58429
chr8.3 mRNA 15880487 15881726 15880487 ID=MS.gene58429.t1;Parent=MS.gene58429
chr8.3 exon 15881641 15881726 15881641 ID=MS.gene58429.t1.exon1;Parent=MS.gene58429.t1
chr8.3 CDS 15881641 15881726 15881641 ID=cds.MS.gene58429.t1;Parent=MS.gene58429.t1
chr8.3 exon 15881407 15881531 15881407 ID=MS.gene58429.t1.exon2;Parent=MS.gene58429.t1
chr8.3 CDS 15881407 15881531 15881407 ID=cds.MS.gene58429.t1;Parent=MS.gene58429.t1
chr8.3 exon 15880907 15881244 15880907 ID=MS.gene58429.t1.exon3;Parent=MS.gene58429.t1
chr8.3 CDS 15880907 15881244 15880907 ID=cds.MS.gene58429.t1;Parent=MS.gene58429.t1
chr8.3 exon 15880706 15880783 15880706 ID=MS.gene58429.t1.exon4;Parent=MS.gene58429.t1
chr8.3 CDS 15880706 15880783 15880706 ID=cds.MS.gene58429.t1;Parent=MS.gene58429.t1
chr8.3 exon 15880487 15880492 15880487 ID=MS.gene58429.t1.exon5;Parent=MS.gene58429.t1
chr8.3 CDS 15880487 15880492 15880487 ID=cds.MS.gene58429.t1;Parent=MS.gene58429.t1
Gene Sequence

>MS.gene58429

ATGGAGAGTATGCCACTTACTTGTTGGAGCTTTTACAATGACATAGATGAAAAGCCATTTTCATATAACCGCCAATTTCCTAACATGTAAGTCATGAAACTTGTGTTTACATCTCTTTTTTACATTATGTTGCCATGCAAAAATTTATTACTTCGGTTTTTGAGTACTCATTAGAAATTTATTTAATTTTTGCAGTGGAATCATTAGTGAGTATTCACCCATACACAATGATGGTTTGGAACTGGATTTTGATTCTCTTATGAAGTGTAATTCCCCTCATCATCACCCTCTATACATTGAACCAATGCCAAGGCTGGAAGGTTATCATCAAACCATATACATGCCACATTCCCAATTATTTATAAGTTTATATATTCTATTATTCTCATTTTAAATTTTGGTTGCGGTAATGATTGCAAACTTTTATATTGTAATAAATACAAAGCAATTATATGTTCTTCTGATTAATATTGTGGCTGCAGACGACTATGAAATTTGGTATGGTATGGAGAAAGGATTTGGTGACTTGAGCGAAATGATCGATGATTATGCAGCGTTTGATTCTGAAAAAAGTGGAAATGAAATTAACAAAGAGGTTGTGGAGGTAAAGCTAGAAGGAGTGGAGAGGATTAGTGATGGTAATACAAAGAATTTGTCAAGGAAGACCATATCTCAGTATTTTTATATGCCAATAACACAAGCTGCAAGAGAACTGAATGTGGGCCTCACACATTTGAAAAAACGGTGTAGGGAGTTGGGTATTCGTAGGTGGCCCCATAGAAAACTCATGAGCCTGCAAACCTTGATCAATAATATTCAGGTACTTGAAAAAGAAACTTTTTAGTATATAAATGTCATTATGTTGTTGTTACCAAAAATAATAATAATAATAACATTATGTTGATTGTTTATGGTGAGTATATTATGTTGGATTTGGTTGCAGGAGCTAGGGAAAGAGGATGGTCTACTTAGTGTTGAAAAGTTGATGGATATCGAGAAATTGGAAGAGGAAATGAAGCTGGTGGAGGAGATGCCAGATATACAATTGCAAGATCATACCAAAAGGCTTAGACAACATTGTTTTAAGGCCAATTACAAGAAAAGAAAGCTTATGGATCAGCTGATCATGTTTTAAGGCATATGGATTATGGATAGTTTTTTGTTTTTGTTTATGGGGTGGGCATGTTATTGTGGACAATCTTTGTCCTGTTTTTTTATCAATGTACATGTCCAGATTTGA

Protein sequence

>MS.gene58429.t1

MESMPLTCWSFYNDIDEKPFSYNRQFPNIGIISEYSPIHNDGLELDFDSLMKCNSPHHHPLYIEPMPRLEDDYEIWYGMEKGFGDLSEMIDDYAAFDSEKSGNEINKEVVEVKLEGVERISDGNTKNLSRKTISQYFYMPITQAARELNVGLTHLKKRCRELGIRRWPHRKLMSLQTLINNIQELGKEDGLLSVEKLMDIEKLEEEMKLI