AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene78280

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene78280.t1 MTR_8g012210 65.882 170 39 2 2 152 158 327 3.49e-67 208
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene78280.t1 AT1G79220 42.012 169 77 3 5 152 188 356 8.97e-35 125

Find 25 sgRNAs with CRISPR-Local

Find 32 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCAAAATTGTACAAATATT+TGG 0.148733 6.4:-56962347 MS.gene78280:CDS
AAATATTTGGTGACGTTAAT+AGG 0.251696 6.4:-56962334 MS.gene78280:CDS
TCTTACAAAGTTTGGTTTAT+CGG 0.270206 6.4:-56962272 MS.gene78280:CDS
AAGAGTTAGGTGTATCAAAA+AGG 0.274692 6.4:-56962468 MS.gene78280:CDS
GTTGACAATGTCATAATATT+AGG 0.285517 6.4:+56962217 None:intergenic
GTGTTAAATCTTACAAAGTT+TGG 0.362500 6.4:-56962280 MS.gene78280:CDS
ATATCTTGTATCTTCATTGC+TGG 0.382970 6.4:+56962124 None:intergenic
TATGACATTGTCAACTGATA+AGG 0.397671 6.4:-56962209 MS.gene78280:CDS
AGCAATGAAGATACAAGATA+TGG 0.413373 6.4:-56962122 MS.gene78280:CDS
ATTGCACAATATGAAGAGTT+AGG 0.445327 6.4:-56962481 MS.gene78280:CDS
TTCCTTTGATGATGAGAAGA+TGG 0.470731 6.4:-56962401 MS.gene78280:CDS
ATGGTATATATAAGCAGGAC+TGG 0.475180 6.4:-56962382 MS.gene78280:CDS
TTATCGGATGATGAGATAGT+TGG 0.498981 6.4:-56962256 MS.gene78280:CDS
AGAAGATGGTATATATAAGC+AGG 0.519672 6.4:-56962387 MS.gene78280:CDS
TGGTATATATAAGCAGGACT+GGG 0.532776 6.4:-56962381 MS.gene78280:CDS
TACCATCTTCTCATCATCAA+AGG 0.572098 6.4:+56962399 None:intergenic
TAACTCTTCATATTGTGCAA+TGG 0.590354 6.4:+56962483 None:intergenic
GCTCAATACTTGAAGCATTG+AGG 0.596101 6.4:-56962081 MS.gene78280:CDS
AAGGAAGTCCTTGTAATCGC+CGG 0.596852 6.4:+56962418 None:intergenic
CATTGAGGATGTCAGAGGAG+AGG 0.607342 6.4:-56962066 MS.gene78280:CDS
GTTAATAGGCATCTCTCGCG+TGG 0.612605 6.4:-56962320 MS.gene78280:CDS
CGTGGAAATCATTCACGCAA+AGG 0.617273 6.4:-56962302 MS.gene78280:CDS
TGTCAACTGATAAGGTTCAG+TGG 0.649714 6.4:-56962201 MS.gene78280:CDS
TGAAGCATTGAGGATGTCAG+AGG 0.654982 6.4:-56962071 MS.gene78280:CDS
GGTATATATAAGCAGGACTG+GGG 0.703023 6.4:-56962380 MS.gene78280:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TGCAAAATTGTACAAATATT+TGG - chr6.4:56962209-56962228 MS.gene78280:CDS 20.0%
! GTGTTAAATCTTACAAAGTT+TGG - chr6.4:56962276-56962295 MS.gene78280:CDS 25.0%
! GTTGACAATGTCATAATATT+AGG + chr6.4:56962342-56962361 None:intergenic 25.0%
!! TCTTACAAAGTTTGGTTTAT+CGG - chr6.4:56962284-56962303 MS.gene78280:CDS 25.0%
!!! AAATATTTGGTGACGTTAAT+AGG - chr6.4:56962222-56962241 MS.gene78280:CDS 25.0%
AAGAGTTAGGTGTATCAAAA+AGG - chr6.4:56962088-56962107 MS.gene78280:CDS 30.0%
AGAAGATGGTATATATAAGC+AGG - chr6.4:56962169-56962188 MS.gene78280:CDS 30.0%
AGAGTTAGGTGTATCAAAAA+GGG - chr6.4:56962089-56962108 MS.gene78280:CDS 30.0%
AGCAATGAAGATACAAGATA+TGG - chr6.4:56962434-56962453 MS.gene78280:CDS 30.0%
ATATCTTGTATCTTCATTGC+TGG + chr6.4:56962435-56962454 None:intergenic 30.0%
ATTGCACAATATGAAGAGTT+AGG - chr6.4:56962075-56962094 MS.gene78280:CDS 30.0%
TAACTCTTCATATTGTGCAA+TGG + chr6.4:56962076-56962095 None:intergenic 30.0%
TATGACATTGTCAACTGATA+AGG - chr6.4:56962347-56962366 MS.gene78280:CDS 30.0%
! TGGAACAGAACTTTCATTTT+AGG - chr6.4:56962375-56962394 MS.gene78280:CDS 30.0%
ATGGTATATATAAGCAGGAC+TGG - chr6.4:56962174-56962193 MS.gene78280:CDS 35.0%
TACCATCTTCTCATCATCAA+AGG + chr6.4:56962160-56962179 None:intergenic 35.0%
TGGTATATATAAGCAGGACT+GGG - chr6.4:56962175-56962194 MS.gene78280:CDS 35.0%
TTATCGGATGATGAGATAGT+TGG - chr6.4:56962300-56962319 MS.gene78280:CDS 35.0%
!! TTCCTTTGATGATGAGAAGA+TGG - chr6.4:56962155-56962174 MS.gene78280:CDS 35.0%
!!! TGGTTGAAATGCTGATTTTG+CGG - chr6.4:56962115-56962134 MS.gene78280:CDS 35.0%
AGGTGTATCAAAAAGGGACT+TGG - chr6.4:56962095-56962114 MS.gene78280:CDS 40.0%
GGTATATATAAGCAGGACTG+GGG - chr6.4:56962176-56962195 MS.gene78280:CDS 40.0%
TGTCAACTGATAAGGTTCAG+TGG - chr6.4:56962355-56962374 MS.gene78280:CDS 40.0%
!! GCTCAATACTTGAAGCATTG+AGG - chr6.4:56962475-56962494 MS.gene78280:CDS 40.0%
AAGGAAGTCCTTGTAATCGC+CGG + chr6.4:56962141-56962160 None:intergenic 45.0%
CGTGGAAATCATTCACGCAA+AGG - chr6.4:56962254-56962273 MS.gene78280:CDS 45.0%
!! TGAAGCATTGAGGATGTCAG+AGG - chr6.4:56962485-56962504 MS.gene78280:CDS 45.0%
!!! TGAAATGCTGATTTTGCGGC+CGG - chr6.4:56962119-56962138 MS.gene78280:CDS 45.0%
CATTGAGGATGTCAGAGGAG+AGG - chr6.4:56962490-56962509 MS.gene78280:CDS 50.0%
GTTAATAGGCATCTCTCGCG+TGG - chr6.4:56962236-56962255 MS.gene78280:CDS 50.0%
!! AAGCAGGACTGGGGTTTTGA+AGG - chr6.4:56962185-56962204 MS.gene78280:CDS 50.0%
! TTTTGCGGCCGGCGATTACA+AGG - chr6.4:56962130-56962149 MS.gene78280:CDS 55.0%


Chromosome Type Strat End Strand Name
chr6.4 gene 56962060 56962518 56962060 ID=MS.gene78280
chr6.4 mRNA 56962060 56962518 56962060 ID=MS.gene78280.t1;Parent=MS.gene78280
chr6.4 exon 56962060 56962518 56962060 ID=MS.gene78280.t1.exon1;Parent=MS.gene78280.t1
chr6.4 CDS 56962060 56962518 56962060 ID=cds.MS.gene78280.t1;Parent=MS.gene78280.t1
Gene Sequence

>MS.gene78280

ATGCTTCATAAGACCATTGCACAATATGAAGAGTTAGGTGTATCAAAAAGGGACTTGGTTGAAATGCTGATTTTGCGGCCGGCGATTACAAGGACTTCCTTTGATGATGAGAAGATGGTATATATAAGCAGGACTGGGGTTTTGAAGGATGCAAAATTGTACAAATATTTGGTGACGTTAATAGGCATCTCTCGCGTGGAAATCATTCACGCAAAGGTGTTAAATCTTACAAAGTTTGGTTTATCGGATGATGAGATAGTTGGTCTTTTTGATAAGTCTCCTAATATTATGACATTGTCAACTGATAAGGTTCAGTGGAACAGAACTTTCATTTTAGGCACAATGAAGACAGTTTTGAAGTCACGAGTGCTTCCAGCAATGAAGATACAAGATATGGATTTTAAATTGAAAACACGCTCAATACTTGAAGCATTGAGGATGTCAGAGGAGAGGTTTTGA
Protein sequence

>MS.gene78280.t1

MLHKTIAQYEELGVSKRDLVEMLILRPAITRTSFDDEKMVYISRTGVLKDAKLYKYLVTLIGISRVEIIHAKVLNLTKFGLSDDEIVGLFDKSPNIMTLSTDKVQWNRTFILGTMKTVLKSRVLPAMKIQDMDFKLKTRSILEALRMSEERF