AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene045270

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene045270.t1 MTR_3g085430 91.667 132 10 1 1 132 18 148 2.88e-79 232
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene045270.t1 AT5G43250 56.391 133 52 3 3 134 2 129 5.64e-43 139
MS.gene045270.t1 AT1G08970 34.400 125 72 4 3 118 68 191 9.66e-12 60.8
MS.gene045270.t1 AT1G08970 34.400 125 72 4 3 118 68 191 9.66e-12 60.8
MS.gene045270.t1 AT1G08970 34.400 125 72 4 3 118 68 191 9.66e-12 60.8
MS.gene045270.t1 AT1G08970 34.400 125 72 4 3 118 68 191 9.66e-12 60.8
MS.gene045270.t1 AT1G54830 38.889 90 53 2 4 92 59 147 2.90e-11 59.7
MS.gene045270.t1 AT1G54830 38.889 90 53 2 4 92 59 147 2.90e-11 59.7
MS.gene045270.t1 AT1G54830 38.889 90 53 2 4 92 59 147 2.90e-11 59.7
MS.gene045270.t1 AT3G12480 38.961 77 46 1 11 87 5 80 4.82e-11 59.7

Find 43 sgRNAs with CRISPR-Local

Find 39 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCCTCCATGGGTTCCGGTTC+AGG 0.246040 3.2:-73299554 None:intergenic
TCGAGTAGAAAATCACTTAT+TGG 0.263581 3.2:-73299365 None:intergenic
TCCGGTTCAGGTTCAGGTTC+CGG 0.296003 3.2:-73299542 None:intergenic
CAACTTCGGCTTCAGACTTT+CGG 0.357492 3.2:-73299496 None:intergenic
ATGGGTTCCGGTTCAGGTTC+AGG 0.371834 3.2:-73299548 None:intergenic
GAGTTCAGAAGCGTTGTTCT+TGG 0.377847 3.2:+73299220 MS.gene045270:CDS
TATGCCTCCTCCATGGGTTC+CGG 0.409906 3.2:-73299560 None:intergenic
GCCGGAACCTGAACCTGAAC+CGG 0.418474 3.2:+73299541 MS.gene045270:CDS
ATCTTCTTCACTCTACTCTT+CGG 0.421448 3.2:-73299167 None:intergenic
CGATCCGCAACCGCCGCCGC+TGG 0.421993 3.2:-73299428 None:intergenic
GTACCAACCGGAACAGATTT+AGG 0.424572 3.2:-73299452 None:intergenic
GGATCGGCCTAAATCTGTTC+CGG 0.447912 3.2:+73299445 MS.gene045270:CDS
TCAGGTTCAGGTTCCGGCGG+TGG 0.450466 3.2:-73299536 None:intergenic
GTTCTTGGTGTCACGATCTA+CGG 0.459375 3.2:+73299235 MS.gene045270:CDS
CAGCGGCGGCGGTTGCGGAT+CGG 0.466428 3.2:+73299429 MS.gene045270:CDS
TAAACCAGCGGCGGCGGTTG+CGG 0.474107 3.2:+73299424 MS.gene045270:CDS
ATCTGATAAACCAGCGGCGG+CGG 0.487271 3.2:+73299418 MS.gene045270:CDS
CACAACCTATGCCTCCTCCA+TGG 0.514005 3.2:-73299567 None:intergenic
ACTCTACTCTTCGGAAACTC+TGG 0.522689 3.2:-73299158 None:intergenic
TCAATGCGGCGAGTACCAAC+CGG 0.541474 3.2:-73299464 None:intergenic
ACAACCTATGCCTCCTCCAT+GGG 0.542610 3.2:-73299566 None:intergenic
CTCTGGACAAAGACGTGAAG+AGG 0.546039 3.2:+73299195 MS.gene045270:CDS
TTCGCAGTTTCCGACGGCAT+CGG 0.549112 3.2:-73299395 None:intergenic
AATTGCAATTGTTATGGCAG+AGG 0.550560 3.2:+73299109 None:intergenic
TTGCGCTTGAGCATCAACTT+CGG 0.551263 3.2:-73299510 None:intergenic
GGAACCCATGGAGGAGGCAT+AGG 0.556067 3.2:+73299562 MS.gene045270:CDS
TCAGATTTCGCAGTTTCCGA+CGG 0.560923 3.2:-73299401 None:intergenic
GTAGAAAATCACTTATTGGA+CGG 0.569952 3.2:-73299361 None:intergenic
TGAACCTGAACCGGAACCCA+TGG 0.579146 3.2:+73299550 MS.gene045270:CDS
TCAAGCGCAAGCGCCACCGC+CGG 0.588095 3.2:+73299523 MS.gene045270:CDS
CGGCCTAAATCTGTTCCGGT+TGG 0.590306 3.2:+73299449 MS.gene045270:CDS
AGTGAAGAAGATAATCACTC+TGG 0.599750 3.2:+73299178 MS.gene045270:CDS
CGATTTGCTTCCGATGCCGT+CGG 0.600977 3.2:+73299385 MS.gene045270:CDS
TGAACCGGAACCCATGGAGG+AGG 0.608400 3.2:+73299556 MS.gene045270:CDS
TCTGGACAAAGACGTGAAGA+GGG 0.629567 3.2:+73299196 MS.gene045270:CDS
ACCTGAACCGGAACCCATGG+AGG 0.681479 3.2:+73299553 MS.gene045270:CDS
GGTTCAGGTTCAGGTTCCGG+CGG 0.690810 3.2:-73299539 None:intergenic
TATTGAGAAGAAGCGCAAGA+CGG 0.692763 3.2:+73299301 MS.gene045270:CDS
GTTACTTGCTGAAAAGTCTG+CGG 0.696867 3.2:+73299271 MS.gene045270:CDS
GCTTGAACATATAAGAATCG+CGG 0.698334 3.2:+73299328 MS.gene045270:CDS
GAAATCTGATAAACCAGCGG+CGG 0.702085 3.2:+73299415 MS.gene045270:CDS
TGCGAAATCTGATAAACCAG+CGG 0.703898 3.2:+73299412 MS.gene045270:CDS
TTCGGAAGATCTGATCAATG+CGG 0.759168 3.2:-73299478 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
GTAGAAAATCACTTATTGGA+CGG - chr3.2:73299364-73299383 None:intergenic 30.0%
TCGAGTAGAAAATCACTTAT+TGG - chr3.2:73299368-73299387 None:intergenic 30.0%
AGTGAAGAAGATAATCACTC+TGG + chr3.2:73299178-73299197 MS.gene045270:CDS 35.0%
ATCTTCTTCACTCTACTCTT+CGG - chr3.2:73299170-73299189 None:intergenic 35.0%
GCTTGAACATATAAGAATCG+CGG + chr3.2:73299328-73299347 MS.gene045270:CDS 35.0%
TGCGAAATCTGATAAACCAG+CGG + chr3.2:73299412-73299431 MS.gene045270:CDS 40.0%
TTCGGAAGATCTGATCAATG+CGG - chr3.2:73299481-73299500 None:intergenic 40.0%
! GTTACTTGCTGAAAAGTCTG+CGG + chr3.2:73299271-73299290 MS.gene045270:CDS 40.0%
! TATTGAGAAGAAGCGCAAGA+CGG + chr3.2:73299301-73299320 MS.gene045270:CDS 40.0%
ACTCTACTCTTCGGAAACTC+TGG - chr3.2:73299161-73299180 None:intergenic 45.0%
CAACTTCGGCTTCAGACTTT+CGG - chr3.2:73299499-73299518 None:intergenic 45.0%
GAAATCTGATAAACCAGCGG+CGG + chr3.2:73299415-73299434 MS.gene045270:CDS 45.0%
GTACCAACCGGAACAGATTT+AGG - chr3.2:73299455-73299474 None:intergenic 45.0%
TCAGATTTCGCAGTTTCCGA+CGG - chr3.2:73299404-73299423 None:intergenic 45.0%
TCTGGACAAAGACGTGAAGA+GGG + chr3.2:73299196-73299215 MS.gene045270:CDS 45.0%
TTGCGCTTGAGCATCAACTT+CGG - chr3.2:73299513-73299532 None:intergenic 45.0%
!! GAGTTCAGAAGCGTTGTTCT+TGG + chr3.2:73299220-73299239 MS.gene045270:CDS 45.0%
!! GTTCTTGGTGTCACGATCTA+CGG + chr3.2:73299235-73299254 MS.gene045270:CDS 45.0%
CTCTGGACAAAGACGTGAAG+AGG + chr3.2:73299195-73299214 MS.gene045270:CDS 50.0%
GGATCGGCCTAAATCTGTTC+CGG + chr3.2:73299445-73299464 MS.gene045270:CDS 50.0%
ATCTGATAAACCAGCGGCGG+CGG + chr3.2:73299418-73299437 MS.gene045270:CDS 55.0%
CGGCCTAAATCTGTTCCGGT+TGG + chr3.2:73299449-73299468 MS.gene045270:CDS 55.0%
TATGCCTCCTCCATGGGTTC+CGG - chr3.2:73299563-73299582 None:intergenic 55.0%
TCAATGCGGCGAGTACCAAC+CGG - chr3.2:73299467-73299486 None:intergenic 55.0%
TGAACCTGAACCGGAACCCA+TGG + chr3.2:73299550-73299569 MS.gene045270:CDS 55.0%
TTCGCAGTTTCCGACGGCAT+CGG - chr3.2:73299398-73299417 None:intergenic 55.0%
! ATGGGTTCCGGTTCAGGTTC+AGG - chr3.2:73299551-73299570 None:intergenic 55.0%
! CGATTTGCTTCCGATGCCGT+CGG + chr3.2:73299385-73299404 MS.gene045270:CDS 55.0%
! TCCGGTTCAGGTTCAGGTTC+CGG - chr3.2:73299545-73299564 None:intergenic 55.0%
ACCTGAACCGGAACCCATGG+AGG + chr3.2:73299553-73299572 MS.gene045270:CDS 60.0%
GCCGGAACCTGAACCTGAAC+CGG + chr3.2:73299541-73299560 MS.gene045270:CDS 60.0%
TCCTCCATGGGTTCCGGTTC+AGG - chr3.2:73299557-73299576 None:intergenic 60.0%
TGAACCGGAACCCATGGAGG+AGG + chr3.2:73299556-73299575 MS.gene045270:CDS 60.0%
! GGTTCAGGTTCAGGTTCCGG+CGG - chr3.2:73299542-73299561 None:intergenic 60.0%
TAAACCAGCGGCGGCGGTTG+CGG + chr3.2:73299424-73299443 MS.gene045270:CDS 65.0%
! TCAGGTTCAGGTTCCGGCGG+TGG - chr3.2:73299539-73299558 None:intergenic 65.0%
TCAAGCGCAAGCGCCACCGC+CGG + chr3.2:73299523-73299542 MS.gene045270:CDS 70.0%
CAGCGGCGGCGGTTGCGGAT+CGG + chr3.2:73299429-73299448 MS.gene045270:CDS 75.0%
! CGATCCGCAACCGCCGCCGC+TGG - chr3.2:73299431-73299450 None:intergenic 80.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 73299122 73299583 73299122 ID=MS.gene045270
chr3.2 mRNA 73299122 73299583 73299122 ID=MS.gene045270.t1;Parent=MS.gene045270
chr3.2 exon 73299122 73299583 73299122 ID=MS.gene045270.t1.exon1;Parent=MS.gene045270.t1
chr3.2 CDS 73299122 73299583 73299122 ID=cds.MS.gene045270.t1;Parent=MS.gene045270.t1
Gene Sequence

>MS.gene045270

ATGGCAGAGGAAGAAGAGAAAACGTTGTCGTTTGAACCAGAGTTTCCGAAGAGTAGAGTGAAGAAGATAATCACTCTGGACAAAGACGTGAAGAGGGTGAGTTCAGAAGCGTTGTTCTTGGTGTCACGATCTACGGAGCTTTTTTTACAGTTACTTGCTGAAAAGTCTGCGGAAGTTGCTATTGAGAAGAAGCGCAAGACGGTGAAGCTTGAACATATAAGAATCGCGGTGAAGAGAAACCGTCCAATAAGTGATTTTCTACTCGATTTGCTTCCGATGCCGTCGGAAACTGCGAAATCTGATAAACCAGCGGCGGCGGTTGCGGATCGGCCTAAATCTGTTCCGGTTGGTACTCGCCGCATTGATCAGATCTTCCGAAAGTCTGAAGCCGAAGTTGATGCTCAAGCGCAAGCGCCACCGCCGGAACCTGAACCTGAACCGGAACCCATGGAGGAGGCATAG
Protein sequence

>MS.gene045270.t1

MAEEEEKTLSFEPEFPKSRVKKIITLDKDVKRVSSEALFLVSRSTELFLQLLAEKSAEVAIEKKRKTVKLEHIRIAVKRNRPISDFLLDLLPMPSETAKSDKPAAAVADRPKSVPVGTRRIDQIFRKSEAEVDAQAQAPPPEPEPEPEPMEEA