AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene042412

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene042412.t1 MTR_8g012210 66.471 170 38 2 2 152 158 327 1.19e-68 212
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene042412.t1 AT1G79220 41.860 172 79 3 2 152 185 356 5.09e-36 128

Find 24 sgRNAs with CRISPR-Local

Find 31 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCAAAATTGTACAAATATT+TGG 0.148733 6.2:-81201482 MS.gene042412:CDS
AAATATTTGGTGACGTTAAT+AGG 0.251696 6.2:-81201469 MS.gene042412:CDS
TCTTACAAAGTTTGGTTTAT+CGG 0.270206 6.2:-81201407 MS.gene042412:CDS
AAGAGTTAGGTGTATCAAAA+AGG 0.274692 6.2:-81201603 MS.gene042412:CDS
GTTGACAATGTCATAATATT+AGG 0.285517 6.2:+81201352 None:intergenic
GTGTTAAATCTTACAAAGTT+TGG 0.362500 6.2:-81201415 MS.gene042412:CDS
TATGACATTGTCAACTGATA+AGG 0.397671 6.2:-81201344 MS.gene042412:CDS
AGCAATGAAGATACAAGATA+TGG 0.413373 6.2:-81201257 MS.gene042412:CDS
ATTGCACAATATGAAGAGTT+AGG 0.445327 6.2:-81201616 MS.gene042412:CDS
TTCCTTTGATGATGAGAAGA+TGG 0.470731 6.2:-81201536 MS.gene042412:CDS
ATGGTATATATAAGCAGGAC+TGG 0.475180 6.2:-81201517 MS.gene042412:CDS
TTATCGGATGATGAGATAGT+TGG 0.498981 6.2:-81201391 MS.gene042412:CDS
AGAAGATGGTATATATAAGC+AGG 0.519672 6.2:-81201522 MS.gene042412:CDS
TGGTATATATAAGCAGGACT+GGG 0.532776 6.2:-81201516 MS.gene042412:CDS
TACCATCTTCTCATCATCAA+AGG 0.572098 6.2:+81201534 None:intergenic
TAACTCTTCATATTGTGCAA+TGG 0.590354 6.2:+81201618 None:intergenic
GCTCAATACTTGAAGCATTG+AGG 0.596101 6.2:-81201216 MS.gene042412:CDS
AAGGAAGTCCTTGTAATCGC+CGG 0.596852 6.2:+81201553 None:intergenic
CATTGAGGATGTCAGAGGAG+AGG 0.607342 6.2:-81201201 MS.gene042412:CDS
GTTAATAGGCATCTCTCGCG+TGG 0.612605 6.2:-81201455 MS.gene042412:CDS
CGTGGAAATCATTCACGCAA+AGG 0.617273 6.2:-81201437 MS.gene042412:CDS
TGTCAACTGATAAGGTTCAG+TGG 0.649714 6.2:-81201336 MS.gene042412:CDS
TGAAGCATTGAGGATGTCAG+AGG 0.654982 6.2:-81201206 MS.gene042412:CDS
GGTATATATAAGCAGGACTG+GGG 0.703023 6.2:-81201515 MS.gene042412:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TGCAAAATTGTACAAATATT+TGG - chr6.2:81201344-81201363 MS.gene042412:CDS 20.0%
! GTGTTAAATCTTACAAAGTT+TGG - chr6.2:81201411-81201430 MS.gene042412:CDS 25.0%
! GTTGACAATGTCATAATATT+AGG + chr6.2:81201477-81201496 None:intergenic 25.0%
!! TCTTACAAAGTTTGGTTTAT+CGG - chr6.2:81201419-81201438 MS.gene042412:CDS 25.0%
!!! AAATATTTGGTGACGTTAAT+AGG - chr6.2:81201357-81201376 MS.gene042412:CDS 25.0%
AAGAGTTAGGTGTATCAAAA+AGG - chr6.2:81201223-81201242 MS.gene042412:CDS 30.0%
AGAAGATGGTATATATAAGC+AGG - chr6.2:81201304-81201323 MS.gene042412:CDS 30.0%
AGAGTTAGGTGTATCAAAAA+GGG - chr6.2:81201224-81201243 MS.gene042412:CDS 30.0%
AGCAATGAAGATACAAGATA+TGG - chr6.2:81201569-81201588 MS.gene042412:CDS 30.0%
ATTGCACAATATGAAGAGTT+AGG - chr6.2:81201210-81201229 MS.gene042412:CDS 30.0%
TAACTCTTCATATTGTGCAA+TGG + chr6.2:81201211-81201230 None:intergenic 30.0%
TATGACATTGTCAACTGATA+AGG - chr6.2:81201482-81201501 MS.gene042412:CDS 30.0%
! TGGAACAGAACTTTCATTTT+AGG - chr6.2:81201510-81201529 MS.gene042412:CDS 30.0%
ATGGTATATATAAGCAGGAC+TGG - chr6.2:81201309-81201328 MS.gene042412:CDS 35.0%
TACCATCTTCTCATCATCAA+AGG + chr6.2:81201295-81201314 None:intergenic 35.0%
TGGTATATATAAGCAGGACT+GGG - chr6.2:81201310-81201329 MS.gene042412:CDS 35.0%
TTATCGGATGATGAGATAGT+TGG - chr6.2:81201435-81201454 MS.gene042412:CDS 35.0%
!! TTCCTTTGATGATGAGAAGA+TGG - chr6.2:81201290-81201309 MS.gene042412:CDS 35.0%
!!! TGGTTGAAATGCTGATTTTG+CGG - chr6.2:81201250-81201269 MS.gene042412:CDS 35.0%
AGGTGTATCAAAAAGGGACT+TGG - chr6.2:81201230-81201249 MS.gene042412:CDS 40.0%
GGTATATATAAGCAGGACTG+GGG - chr6.2:81201311-81201330 MS.gene042412:CDS 40.0%
TGTCAACTGATAAGGTTCAG+TGG - chr6.2:81201490-81201509 MS.gene042412:CDS 40.0%
!! GCTCAATACTTGAAGCATTG+AGG - chr6.2:81201610-81201629 MS.gene042412:CDS 40.0%
AAGGAAGTCCTTGTAATCGC+CGG + chr6.2:81201276-81201295 None:intergenic 45.0%
CGTGGAAATCATTCACGCAA+AGG - chr6.2:81201389-81201408 MS.gene042412:CDS 45.0%
!! TGAAGCATTGAGGATGTCAG+AGG - chr6.2:81201620-81201639 MS.gene042412:CDS 45.0%
!!! TGAAATGCTGATTTTGCGGC+CGG - chr6.2:81201254-81201273 MS.gene042412:CDS 45.0%
CATTGAGGATGTCAGAGGAG+AGG - chr6.2:81201625-81201644 MS.gene042412:CDS 50.0%
GTTAATAGGCATCTCTCGCG+TGG - chr6.2:81201371-81201390 MS.gene042412:CDS 50.0%
!! AAGCAGGACTGGGGTTTTGA+AGG - chr6.2:81201320-81201339 MS.gene042412:CDS 50.0%
! TTTTGCGGCCGGCGATTACA+AGG - chr6.2:81201265-81201284 MS.gene042412:CDS 55.0%


Chromosome Type Strat End Strand Name
chr6.2 gene 81201195 81201653 81201195 ID=MS.gene042412
chr6.2 mRNA 81201195 81201653 81201195 ID=MS.gene042412.t1;Parent=MS.gene042412
chr6.2 exon 81201195 81201653 81201195 ID=MS.gene042412.t1.exon1;Parent=MS.gene042412.t1
chr6.2 CDS 81201195 81201653 81201195 ID=cds.MS.gene042412.t1;Parent=MS.gene042412.t1
Gene Sequence

>MS.gene042412

ATGCTTCATAAGACCATTGCACAATATGAAGAGTTAGGTGTATCAAAAAGGGACTTGGTTGAAATGCTGATTTTGCGGCCGGCGATTACAAGGACTTCCTTTGATGATGAGAAGATGGTATATATAAGCAGGACTGGGGTTTTGAAGGATGCAAAATTGTACAAATATTTGGTGACGTTAATAGGCATCTCTCGCGTGGAAATCATTCACGCAAAGGTGTTAAATCTTACAAAGTTTGGTTTATCGGATGATGAGATAGTTGGTCTTTTTGATAAGTCTCCTAATATTATGACATTGTCAACTGATAAGGTTCAGTGGAACAGAACTTTCATTTTAGGCACAATGAAGACAGTTTTGAAGTCACGAGTGCTTCTAGCAATGAAGATACAAGATATGGATTTTAAATTGAAAACACGCTCAATACTTGAAGCATTGAGGATGTCAGAGGAGAGGTTTTGA
Protein sequence

>MS.gene042412.t1

MLHKTIAQYEELGVSKRDLVEMLILRPAITRTSFDDEKMVYISRTGVLKDAKLYKYLVTLIGISRVEIIHAKVLNLTKFGLSDDEIVGLFDKSPNIMTLSTDKVQWNRTFILGTMKTVLKSRVLLAMKIQDMDFKLKTRSILEALRMSEERF