AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene02984

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene02984.t1 MTR_1g089830 89.394 66 7 0 1 66 1 66 3.47e-39 129
MS.gene02984.t1 MTR_1g045040 63.415 82 30 0 1 82 1 82 3.16e-35 118
MS.gene02984.t1 MTR_8g039350 77.273 44 10 0 3 46 14 57 3.46e-19 75.9
MS.gene02984.t1 MTR_5g013370 50.000 52 25 1 4 55 13 63 3.81e-11 59.3
MS.gene02984.t1 MTR_5g013370 50.000 52 25 1 4 55 13 63 6.03e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 29 sgRNAs with CRISPR-Local

Find 60 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGTTCGAAAGTACTATTAT+TGG 0.199554 1.3:-62826725 MS.gene02984:CDS
ATTCTTAACGGGTACAATTC+AGG 0.254607 1.3:-62827028 MS.gene02984:CDS
GGAGTTGGGTTTGAAAGCTT+TGG 0.278312 1.3:+62827319 None:intergenic
GAGTTGGGTTTGAAAGCTTT+GGG 0.313526 1.3:+62827320 None:intergenic
ATAGTCTTCAAGGGTTCCTT+TGG 0.332237 1.3:+62827408 None:intergenic
CACAAGATTGGCTTCTCATA+TGG 0.363409 1.3:+62827457 None:intergenic
TTTCAACAGAAACTAAAGTT+TGG 0.373286 1.3:-62827489 MS.gene02984:CDS
AGGAATTATGAAGGTTAGAA+AGG 0.385789 1.3:-62826798 MS.gene02984:CDS
ATACTTTGCTGAGCTATCTT+CGG 0.400089 1.3:+62827382 None:intergenic
TACTTTGCTGAGCTATCTTC+GGG 0.431538 1.3:+62827383 None:intergenic
TTCTTAACGGGTACAATTCA+GGG 0.433766 1.3:-62827027 MS.gene02984:CDS
CATTGTACGAATATTCTTAA+CGG 0.434713 1.3:-62827040 MS.gene02984:CDS
ATTGTACGAATATTCTTAAC+GGG 0.442541 1.3:-62827039 MS.gene02984:CDS
GGGTTCTCCTATAGGTATGA+TGG 0.445481 1.3:-62826827 MS.gene02984:intron
CCACAGGCGTTACACAAGAT+TGG 0.446240 1.3:+62827445 None:intergenic
GAAACTAAAGTTTGGCGTAA+AGG 0.450000 1.3:-62827481 MS.gene02984:CDS
TCTTCGGGAGATAGTCTTCA+AGG 0.462167 1.3:+62827398 None:intergenic
GGAATTATGAAGGTTAGAAA+GGG 0.462458 1.3:-62826797 MS.gene02984:CDS
CGCCTGTGGATTGCATTTCA+AGG 0.472275 1.3:-62827431 MS.gene02984:CDS
TATAGGTATGATGGGTATAG+AGG 0.507116 1.3:-62826818 MS.gene02984:intron
GGCCTTGAAATGCAATCCAC+AGG 0.512475 1.3:+62827429 None:intergenic
TAATACTGATGAGATCAAAC+AGG 0.526390 1.3:-62826769 MS.gene02984:CDS
GGTTCTCCTATAGGTATGAT+GGG 0.561531 1.3:-62826826 MS.gene02984:intron
AAGCTTTCAAACCCAACTCC+AGG 0.571736 1.3:-62827316 MS.gene02984:intron
CCAATCTTGTGTAACGCCTG+TGG 0.600058 1.3:-62827445 MS.gene02984:CDS
CTTCGGGAGATAGTCTTCAA+GGG 0.601274 1.3:+62827399 None:intergenic
GGATTGCATTTCAAGGCCAA+AGG 0.606742 1.3:-62827424 MS.gene02984:CDS
TGGGTATAGAGGAATTATGA+AGG 0.626174 1.3:-62826807 MS.gene02984:CDS
TCTTAACGGGTACAATTCAG+GGG 0.645168 1.3:-62827026 MS.gene02984:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATATATTTTAAAAACTTTAG+CGG + chr1.3:62827046-62827065 None:intergenic 10.0%
!! ACAACTCATATATAAATGTT+AGG + chr1.3:62827217-62827236 None:intergenic 20.0%
!! ATCAATCAATGCATTATAAA+AGG + chr1.3:62826994-62827013 None:intergenic 20.0%
!! ATGCATTATAAAAGGAAAAA+TGG + chr1.3:62826986-62827005 None:intergenic 20.0%
!! CAACTCATATATAAATGTTA+GGG + chr1.3:62827216-62827235 None:intergenic 20.0%
!! GAAAAATGGATGATATAAAA+TGG + chr1.3:62826972-62826991 None:intergenic 20.0%
!!! AATAACTTCAGCTTTAAATT+TGG + chr1.3:62826939-62826958 None:intergenic 20.0%
!!! CTTTAAATTTGGTGAAATAT+GGG + chr1.3:62826928-62826947 None:intergenic 20.0%
! AAATGGATGATATAAAATGG+AGG + chr1.3:62826969-62826988 None:intergenic 25.0%
! AATGGATGATATAAAATGGA+GGG + chr1.3:62826968-62826987 None:intergenic 25.0%
! ATTGTACGAATATTCTTAAC+GGG - chr1.3:62827160-62827179 MS.gene02984:intron 25.0%
! CATTGTACGAATATTCTTAA+CGG - chr1.3:62827159-62827178 MS.gene02984:intron 25.0%
! CGATTGAAAATGAAAATGAT+GGG - chr1.3:62827078-62827097 MS.gene02984:intron 25.0%
! TCGATTGAAAATGAAAATGA+TGG - chr1.3:62827077-62827096 MS.gene02984:intron 25.0%
! TTTCAACAGAAACTAAAGTT+TGG - chr1.3:62826710-62826729 MS.gene02984:CDS 25.0%
!! AATTTTTATTACCTGGAGTT+GGG + chr1.3:62826897-62826916 None:intergenic 25.0%
!! GAATTGCAATTTTTATTACC+TGG + chr1.3:62826904-62826923 None:intergenic 25.0%
!! GCTTTAAATTTGGTGAAATA+TGG + chr1.3:62826929-62826948 None:intergenic 25.0%
!!! ATTGATAGTGAAGCAAATTA+CGG + chr1.3:62827243-62827262 None:intergenic 25.0%
!!! CAGATATTTTTTCAATGTCA+AGG + chr1.3:62826852-62826871 None:intergenic 25.0%
!!! TTGTTCGAAAGTACTATTAT+TGG - chr1.3:62827474-62827493 MS.gene02984:CDS 25.0%
AAACAATGAACCATGATGTT+TGG + chr1.3:62827327-62827346 None:intergenic 30.0%
AACTTTGTAACCAAACATCA+TGG - chr1.3:62827314-62827333 MS.gene02984:intron 30.0%
AGGAATTATGAAGGTTAGAA+AGG - chr1.3:62827401-62827420 MS.gene02984:CDS 30.0%
ATAAGTAGTGTAAAATGGAC+AGG - chr1.3:62827109-62827128 MS.gene02984:intron 30.0%
GACTCATAAGTAGTGTAAAA+TGG - chr1.3:62827104-62827123 MS.gene02984:intron 30.0%
GGAATTATGAAGGTTAGAAA+GGG - chr1.3:62827402-62827421 MS.gene02984:CDS 30.0%
TAATACTGATGAGATCAAAC+AGG - chr1.3:62827430-62827449 MS.gene02984:CDS 30.0%
TGATGTTTGGTTACAAAGTT+TGG + chr1.3:62827314-62827333 None:intergenic 30.0%
TTGCTTCACTATCAATAAGA+TGG - chr1.3:62827247-62827266 MS.gene02984:intron 30.0%
! CAATTTTTATTACCTGGAGT+TGG + chr1.3:62826898-62826917 None:intergenic 30.0%
ATACTTTGCTGAGCTATCTT+CGG + chr1.3:62826820-62826839 None:intergenic 35.0%
GAAACTAAAGTTTGGCGTAA+AGG - chr1.3:62826718-62826737 MS.gene02984:CDS 35.0%
TCTATACCCATCATACCTAT+AGG + chr1.3:62827382-62827401 None:intergenic 35.0%
TGGGTATAGAGGAATTATGA+AGG - chr1.3:62827392-62827411 MS.gene02984:CDS 35.0%
! ATTCTTAACGGGTACAATTC+AGG - chr1.3:62827171-62827190 MS.gene02984:intron 35.0%
! TTCTTAACGGGTACAATTCA+GGG - chr1.3:62827172-62827191 MS.gene02984:intron 35.0%
!! TATAGGTATGATGGGTATAG+AGG - chr1.3:62827381-62827400 MS.gene02984:CDS 35.0%
ATAGTCTTCAAGGGTTCCTT+TGG + chr1.3:62826794-62826813 None:intergenic 40.0%
CAGGTACTCAACATGACAAT+GGG - chr1.3:62827352-62827371 MS.gene02984:CDS 40.0%
CATTGTCATGTTGAGTACCT+GGG + chr1.3:62827353-62827372 None:intergenic 40.0%
GAGTTGGGTTTGAAAGCTTT+GGG + chr1.3:62826882-62826901 None:intergenic 40.0%
GGTTCTCCTATAGGTATGAT+GGG - chr1.3:62827373-62827392 MS.gene02984:CDS 40.0%
TACTTTGCTGAGCTATCTTC+GGG + chr1.3:62826819-62826838 None:intergenic 40.0%
! ATGACAATGGGTTCTCCTAT+AGG - chr1.3:62827364-62827383 MS.gene02984:CDS 40.0%
! TCTTAACGGGTACAATTCAG+GGG - chr1.3:62827173-62827192 MS.gene02984:intron 40.0%
!! CACAAGATTGGCTTCTCATA+TGG + chr1.3:62826745-62826764 None:intergenic 40.0%
AAGCTTTCAAACCCAACTCC+AGG - chr1.3:62826883-62826902 MS.gene02984:intron 45.0%
ATGGTTCATTGTTTGTGCCC+AGG - chr1.3:62827333-62827352 MS.gene02984:CDS 45.0%
CCAGGTACTCAACATGACAA+TGG - chr1.3:62827351-62827370 MS.gene02984:CDS 45.0%
CCATTGTCATGTTGAGTACC+TGG + chr1.3:62827354-62827373 None:intergenic 45.0%
CTTCGGGAGATAGTCTTCAA+GGG + chr1.3:62826803-62826822 None:intergenic 45.0%
GGAGTTGGGTTTGAAAGCTT+TGG + chr1.3:62826883-62826902 None:intergenic 45.0%
GGATTGCATTTCAAGGCCAA+AGG - chr1.3:62826775-62826794 MS.gene02984:CDS 45.0%
GGGTTCTCCTATAGGTATGA+TGG - chr1.3:62827372-62827391 MS.gene02984:CDS 45.0%
TCTTCGGGAGATAGTCTTCA+AGG + chr1.3:62826804-62826823 None:intergenic 45.0%
CCAATCTTGTGTAACGCCTG+TGG - chr1.3:62826754-62826773 MS.gene02984:CDS 50.0%
CCACAGGCGTTACACAAGAT+TGG + chr1.3:62826757-62826776 None:intergenic 50.0%
GGCCTTGAAATGCAATCCAC+AGG + chr1.3:62826773-62826792 None:intergenic 50.0%
! CGCCTGTGGATTGCATTTCA+AGG - chr1.3:62826768-62826787 MS.gene02984:CDS 50.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 62826706 62827515 62826706 ID=MS.gene02984
chr1.3 mRNA 62826706 62827515 62826706 ID=MS.gene02984.t1;Parent=MS.gene02984
chr1.3 exon 62827317 62827515 62827317 ID=MS.gene02984.t1.exon1;Parent=MS.gene02984.t1
chr1.3 CDS 62827317 62827515 62827317 ID=cds.MS.gene02984.t1;Parent=MS.gene02984.t1
chr1.3 exon 62827027 62827090 62827027 ID=MS.gene02984.t1.exon2;Parent=MS.gene02984.t1
chr1.3 CDS 62827027 62827090 62827027 ID=cds.MS.gene02984.t1;Parent=MS.gene02984.t1
chr1.3 exon 62826706 62826835 62826706 ID=MS.gene02984.t1.exon3;Parent=MS.gene02984.t1
chr1.3 CDS 62826706 62826835 62826706 ID=cds.MS.gene02984.t1;Parent=MS.gene02984.t1
Gene Sequence

>MS.gene02984

ATGATTTCAACAGAAACTAAAGTTTGGCGTAAAGGACCATATGAGAAGCCAATCTTGTGTAACGCCTGTGGATTGCATTTCAAGGCCAAAGGAACCCTTGAAGACTATCTCCCGAAGATAGCTCAGCAAAGTATGTCATCAGACCTTGACATTGAAAAAATATCTGAAAGTGACCCAAAGCTTTCAAACCCAACTCCAGGTAATAAAAATTGCAATTCACCCATATTTCACCAAATTTAAAGCTGAAGTTATTCAATTTCCCTCCATTTTATATCATCCATTTTTCCTTTTATAATGCATTGATTGATTTTATTGTAATGTGTGAGAAAGTCACACGCCGCTAAAGTTTTTAAAATATATACTCAAATTAATCGATTGAAAATGAAAATGATGGGCATGACTCATAAGTAGTGTAAAATGGACAGGACAAGCAAGAAGAGTGATCAAGAAATACATTGTACGAATATTCTTAACGGGTACAATTCAGGGGTATTGTTATAATTTGAACCCTAACATTTATATATGAGTTGTAAACCGTAATTTGCTTCACTATCAATAAGATGGAACTACAATTGATCTATAGTCAAAGACGTAGACATACTTTGCCAAACTTTGTAACCAAACATCATGGTTCATTGTTTGTGCCCAGGTACTCAACATGACAATGGGTTCTCCTATAGGTATGATGGGTATAGAGGAATTATGAAGGTTAGAAAGGGTATCTTAATACTGATGAGATCAAACAGGATTGCATGTAACGTCTACATATTGTTCGAAAGTACTATTATTGGTGATGTTGCGCAAATCTAG
Protein sequence

>MS.gene02984.t1

MISTETKVWRKGPYEKPILCNACGLHFKAKGTLEDYLPKIAQQSMSSDLDIEKISESDPKLSNPTPGQARRVIKKYIVRIFLTGTIQGYDGYRGIMKVRKGILILMRSNRIACNVYILFESTIIGDVAQI