AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene029211

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene029211.t1 MTR_1g114500 99.342 152 1 0 1 152 1 152 8.12e-109 306
MS.gene029211.t1 MTR_1g114500 90.345 145 4 1 1 145 1 135 6.83e-91 260
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene029211.t1 AT5G23290 72.368 152 39 2 1 152 1 149 2.79e-73 216

Find 29 sgRNAs with CRISPR-Local

Find 47 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATCACGTTCTCGTCGATAT+CGG 0.346200 1.2:+84275619 MS.gene029211:CDS
AGTTAAGGAACAAGCAGATA+TGG 0.392343 1.2:+84275432 MS.gene029211:CDS
TCGCAGTAATCCTTTCCTTC+AGG 0.397139 1.2:-84275783 None:intergenic
TGAACAGTTGAAAGCAGTTA+AGG 0.432363 1.2:+84275417 MS.gene029211:CDS
GATCTCTCTCTCCGTTCTCT+CGG 0.450391 1.2:+84275535 MS.gene029211:CDS
CGGAAGCGGAGCGATGACTC+TGG 0.463988 1.2:+84275381 MS.gene029211:CDS
CAAGACAGTCTCAACAATAT+CGG 0.466377 1.2:+84275469 MS.gene029211:CDS
TGTTGAGACTGTCTTGAAGA+AGG 0.480129 1.2:-84275462 None:intergenic
GTTCTCGTCGATATCGGAAC+TGG 0.508671 1.2:+84275625 MS.gene029211:CDS
TGAGGATCTTGAAGAGTAGC+AGG 0.512402 1.2:-84275598 None:intergenic
GAGATCGTTGAGAGCGGTGG+TGG 0.515505 1.2:-84275518 None:intergenic
GAAAACCATGCCTGAAGGAA+AGG 0.522733 1.2:+84275773 MS.gene029211:intron
GCTTCGTCGAAGAGCGGAAG+CGG 0.528323 1.2:+84275367 MS.gene029211:CDS
AAAACGTTGCGGATGAAGCT+GGG 0.534177 1.2:+84276181 MS.gene029211:CDS
GTAATCCTTTCCTTCAGGCA+TGG 0.536343 1.2:-84275778 None:intergenic
TAACTTCGATCAACTTGTTG+AGG 0.544631 1.2:+84275830 MS.gene029211:CDS
GAGTTCAAGACGAGTGGTGG+CGG 0.544654 1.2:-84275494 None:intergenic
GGCGAGTTCAAGACGAGTGG+TGG 0.560196 1.2:-84275497 None:intergenic
AGAGAGATCGTTGAGAGCGG+TGG 0.573255 1.2:-84275521 None:intergenic
GAGAAGCGGTGAGAGGAACA+AGG 0.602439 1.2:-84275567 None:intergenic
AAAATGGCTTCGTCGAAGAG+CGG 0.608939 1.2:+84275361 None:intergenic
ATATCGACGAGAACGTGATG+AGG 0.609043 1.2:-84275616 None:intergenic
ACATAGAGAGAAGCGGTGAG+AGG 0.615765 1.2:-84275574 None:intergenic
AAACAGAAAACCATGCCTGA+AGG 0.621995 1.2:+84275768 MS.gene029211:intron
AGCAGGAACATAGAGAGAAG+CGG 0.640463 1.2:-84275581 None:intergenic
GCGGAGCGATGACTCTGGAG+AGG 0.643180 1.2:+84275386 MS.gene029211:CDS
GAGAGAGAGATCGTTGAGAG+CGG 0.661545 1.2:-84275524 None:intergenic
CGGAACTGGTTATTTCGTCG+AGG 0.673821 1.2:+84275639 MS.gene029211:CDS
GGTGGCGAGTTCAAGACGAG+TGG 0.675476 1.2:-84275500 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ACAGATCTAAATAAATTAAT+CGG - chr1.2:84275682-84275701 None:intergenic 15.0%
!! AGATCTAAATAAATTAATCG+GGG - chr1.2:84275680-84275699 None:intergenic 20.0%
!! CAGATCTAAATAAATTAATC+GGG - chr1.2:84275681-84275700 None:intergenic 20.0%
!! CTAGACAAAATATCAAATTA+GGG - chr1.2:84276052-84276071 None:intergenic 20.0%
! AAAAATATCAGAGAGAAAAC+TGG - chr1.2:84276087-84276106 None:intergenic 25.0%
! CCTAGACAAAATATCAAATT+AGG - chr1.2:84276053-84276072 None:intergenic 25.0%
!! AGTTTTCTCTCTGATATTTT+TGG + chr1.2:84276086-84276105 MS.gene029211:intron 25.0%
!! ATCGTATATGCTTCTTTTTA+GGG + chr1.2:84275702-84275721 MS.gene029211:intron 25.0%
!! CCTAATTTGATATTTTGTCT+AGG + chr1.2:84276050-84276069 MS.gene029211:intron 25.0%
!! TATCGTATATGCTTCTTTTT+AGG + chr1.2:84275701-84275720 MS.gene029211:intron 25.0%
!!! GTGTTAGTTTTATACTAATG+TGG + chr1.2:84275975-84275994 MS.gene029211:intron 25.0%
CTTGATGTAATTACAAATGC+AGG + chr1.2:84276143-84276162 MS.gene029211:intron 30.0%
!!! TATGCTTCTTTTTAGGGTTA+TGG + chr1.2:84275708-84275727 MS.gene029211:intron 30.0%
AGTTAAGGAACAAGCAGATA+TGG + chr1.2:84275432-84275451 MS.gene029211:CDS 35.0%
CAAGACAGTCTCAACAATAT+CGG + chr1.2:84275469-84275488 MS.gene029211:CDS 35.0%
CTAATGTGGTTATTCTGTTG+TGG + chr1.2:84275989-84276008 MS.gene029211:intron 35.0%
TGAACAGTTGAAAGCAGTTA+AGG + chr1.2:84275417-84275436 MS.gene029211:CDS 35.0%
!! TAACTTCGATCAACTTGTTG+AGG + chr1.2:84275830-84275849 MS.gene029211:CDS 35.0%
AAACAGAAAACCATGCCTGA+AGG + chr1.2:84275768-84275787 MS.gene029211:intron 40.0%
GTCCAAGAAGAAAAACGTTG+CGG + chr1.2:84276170-84276189 MS.gene029211:CDS 40.0%
TGTTGAGACTGTCTTGAAGA+AGG - chr1.2:84275465-84275484 None:intergenic 40.0%
! ATCCGCAACGTTTTTCTTCT+TGG - chr1.2:84276175-84276194 None:intergenic 40.0%
!!! TGAAGCTGGGCTTATTTTAC+AGG + chr1.2:84276194-84276213 MS.gene029211:CDS 40.0%
AAAAACGTTGCGGATGAAGC+TGG + chr1.2:84276180-84276199 MS.gene029211:CDS 45.0%
AAAACGTTGCGGATGAAGCT+GGG + chr1.2:84276181-84276200 MS.gene029211:CDS 45.0%
AGCAGGAACATAGAGAGAAG+CGG - chr1.2:84275584-84275603 None:intergenic 45.0%
ATATCGACGAGAACGTGATG+AGG - chr1.2:84275619-84275638 None:intergenic 45.0%
CATCACGTTCTCGTCGATAT+CGG + chr1.2:84275619-84275638 MS.gene029211:CDS 45.0%
GAAAACCATGCCTGAAGGAA+AGG + chr1.2:84275773-84275792 MS.gene029211:intron 45.0%
GTAATCCTTTCCTTCAGGCA+TGG - chr1.2:84275781-84275800 None:intergenic 45.0%
TCGCAGTAATCCTTTCCTTC+AGG - chr1.2:84275786-84275805 None:intergenic 45.0%
TGAGGATCTTGAAGAGTAGC+AGG - chr1.2:84275601-84275620 None:intergenic 45.0%
! GGATTTTACTGCCGAGAGAA+CGG - chr1.2:84275549-84275568 None:intergenic 45.0%
ACATAGAGAGAAGCGGTGAG+AGG - chr1.2:84275577-84275596 None:intergenic 50.0%
GAGAGAGAGATCGTTGAGAG+CGG - chr1.2:84275527-84275546 None:intergenic 50.0%
GATCTCTCTCTCCGTTCTCT+CGG + chr1.2:84275535-84275554 MS.gene029211:CDS 50.0%
GTTCTCGTCGATATCGGAAC+TGG + chr1.2:84275625-84275644 MS.gene029211:CDS 50.0%
! CGGAACTGGTTATTTCGTCG+AGG + chr1.2:84275639-84275658 MS.gene029211:CDS 50.0%
AGAGAGATCGTTGAGAGCGG+TGG - chr1.2:84275524-84275543 None:intergenic 55.0%
GAGAAGCGGTGAGAGGAACA+AGG - chr1.2:84275570-84275589 None:intergenic 55.0%
GAGTTCAAGACGAGTGGTGG+CGG - chr1.2:84275497-84275516 None:intergenic 55.0%
GAGATCGTTGAGAGCGGTGG+TGG - chr1.2:84275521-84275540 None:intergenic 60.0%
GCTTCGTCGAAGAGCGGAAG+CGG + chr1.2:84275367-84275386 MS.gene029211:CDS 60.0%
GGCGAGTTCAAGACGAGTGG+TGG - chr1.2:84275500-84275519 None:intergenic 60.0%
GGTGGCGAGTTCAAGACGAG+TGG - chr1.2:84275503-84275522 None:intergenic 60.0%
CGGAAGCGGAGCGATGACTC+TGG + chr1.2:84275381-84275400 MS.gene029211:CDS 65.0%
! GCGGAGCGATGACTCTGGAG+AGG + chr1.2:84275386-84275405 MS.gene029211:CDS 65.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 84275364 84276248 84275364 ID=MS.gene029211
chr1.2 mRNA 84275364 84276248 84275364 ID=MS.gene029211.t1;Parent=MS.gene029211
chr1.2 exon 84275364 84275660 84275364 ID=MS.gene029211.t1.exon1;Parent=MS.gene029211.t1
chr1.2 CDS 84275364 84275660 84275364 ID=cds.MS.gene029211.t1;Parent=MS.gene029211.t1
chr1.2 exon 84275774 84275851 84275774 ID=MS.gene029211.t1.exon2;Parent=MS.gene029211.t1
chr1.2 CDS 84275774 84275851 84275774 ID=cds.MS.gene029211.t1;Parent=MS.gene029211.t1
chr1.2 exon 84276165 84276248 84276165 ID=MS.gene029211.t1.exon3;Parent=MS.gene029211.t1
chr1.2 CDS 84276165 84276248 84276165 ID=cds.MS.gene029211.t1;Parent=MS.gene029211.t1
Gene Sequence

>MS.gene029211

ATGGCTTCGTCGAAGAGCGGAAGCGGAGCGATGACTCTGGAGAGGATGAGCGTTGAACAGTTGAAAGCAGTTAAGGAACAAGCAGATATGGAAGTTAACCTTCTTCAAGACAGTCTCAACAATATCGGCACCGCCACCACTCGTCTTGAACTCGCCACCACCGCTCTCAACGATCTCTCTCTCCGTTCTCTCGGCAGTAAAATCCTTGTTCCTCTCACCGCTTCTCTCTATGTTCCTGCTACTCTTCAAGATCCTCATCACGTTCTCGTCGATATCGGAACTGGTTATTTCGTCGAGGTGAGCTCAACTCTTTCCCCGATTAATTTATTTAGATCTGTATCGTATATGCTTCTTTTTAGGGTTATGGAATATTAATTTTAATTTGAATGTTGTGTTGATGTTGAAAACAGAAAACCATGCCTGAAGGAAAGGATTACTGCGAGCGCAAAATCAACTTACTCAAATCTAACTTCGATCAACTTGTTGAGGTAATTAATTTTCTTATTAATTAAGTACTCTATTTGATTTTGATATATGTATTTCTACTGAATTTGTTTATTCACGATATATATAGATTATACTAGAATAATTGTCATTTGTACTCGATCATTGTGTTAGTTTTATACTAATGTGGTTATTCTGTTGTGGAGAGTGATTGTTCAAATAACACTTATTTTAGTTTAAACCCTAATTTGATATTTTGTCTAGGAAATGAGCTTACCAGTTTTCTCTCTGATATTTTTGGCTCAACTATAATGAAATCGTGTTCAAGAAAAAATCTTGATGTAATTACAAATGCAGGTTGCGTCCAAGAAGAAAAACGTTGCGGATGAAGCTGGGCTTATTTTACAGGCAAAATTGAAGCAATTAGCATCTTCATCCTAA
Protein sequence

>MS.gene029211.t1

MASSKSGSGAMTLERMSVEQLKAVKEQADMEVNLLQDSLNNIGTATTRLELATTALNDLSLRSLGSKILVPLTASLYVPATLQDPHHVLVDIGTGYFVEKTMPEGKDYCERKINLLKSNFDQLVEVASKKKNVADEAGLILQAKLKQLASSS