AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280010317.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010317.01.T01 MTR_2g081820 97.222 108 3 0 1 108 1 108 8.01e-72 220
MsG0280010317.01.T01 MTR_2g081820 97.222 108 3 0 1 108 1 108 8.77e-72 220
MsG0280010317.01.T01 MTR_8g466800 42.453 106 51 3 4 108 3 99 2.12e-13 65.1
MsG0280010317.01.T01 MTR_8g466800 42.453 106 51 3 4 108 3 99 2.37e-13 64.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 20 sgRNAs with CRISPR-Local

Find 22 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCAACTATGTTGTTGGTTA+TGG 0.226781 2:+67880475 None:intergenic
AAACCCATCATATGCAAGTT+AGG 0.299301 2:+67880329 None:intergenic
TTCATCATTCAAGTGGAAAC+TGG 0.369736 2:-67880565 MsG0280010317.01.T01:CDS
AGCAAAATCAACTATGTTGT+TGG 0.374240 2:+67880469 None:intergenic
AACTTGCATATGATGGGTTT+AGG 0.397284 2:-67880326 MsG0280010317.01.T01:CDS
TGCTTGGCAAAATTCAGATA+TGG 0.404515 2:-67880450 MsG0280010317.01.T01:CDS
TTTCTTCTCATACCATGGAT+TGG 0.436639 2:-67880301 MsG0280010317.01.T01:CDS
AGGTCTTTCTTCTCATACCA+TGG 0.450832 2:-67880306 MsG0280010317.01.T01:CDS
TGACCCTAACTTGCATATGA+TGG 0.464882 2:-67880333 MsG0280010317.01.T01:CDS
AATAAAACCAAGATCTTCCA+TGG 0.490265 2:-67880423 MsG0280010317.01.T01:CDS
AACCCATCATATGCAAGTTA+GGG 0.493723 2:+67880330 None:intergenic
GCATGCACTTACATCAAAGA+TGG 0.503036 2:+67880272 None:intergenic
GATCAATTTCATCATTCAAG+TGG 0.505977 2:-67880572 MsG0280010317.01.T01:CDS
GACCCTAACTTGCATATGAT+GGG 0.506459 2:-67880332 MsG0280010317.01.T01:CDS
AATATGAGATTTAATCAAAG+TGG 0.538681 2:-67880524 MsG0280010317.01.T01:CDS
ATCATTCAAGTGGAAACTGG+TGG 0.576066 2:-67880562 MsG0280010317.01.T01:CDS
AGATGGTTGATTCCAATCCA+TGG 0.581488 2:+67880289 None:intergenic
ATGAGATTTAATCAAAGTGG+AGG 0.605878 2:-67880521 MsG0280010317.01.T01:CDS
TCATTCAAGTGGAAACTGGT+GGG 0.627255 2:-67880561 MsG0280010317.01.T01:CDS
GATGAAGTAGAAGAATCTTG+AGG 0.653227 2:+67880356 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATATGAGATTTAATCAAAG+TGG - Chr2:67880340-67880359 MsG0280010317.01.T01:CDS 20.0%
AATAAAACCAAGATCTTCCA+TGG - Chr2:67880441-67880460 MsG0280010317.01.T01:CDS 30.0%
AGCAAAATCAACTATGTTGT+TGG + Chr2:67880398-67880417 None:intergenic 30.0%
ATGAGATTTAATCAAAGTGG+AGG - Chr2:67880343-67880362 MsG0280010317.01.T01:CDS 30.0%
GATCAATTTCATCATTCAAG+TGG - Chr2:67880292-67880311 MsG0280010317.01.T01:CDS 30.0%
! AACAACAGAAGAATTTTCCA+TGG + Chr2:67880461-67880480 None:intergenic 30.0%
! ATCAACTATGTTGTTGGTTA+TGG + Chr2:67880392-67880411 None:intergenic 30.0%
!! ACAACATAGTTGATTTTGCT+TGG - Chr2:67880398-67880417 MsG0280010317.01.T01:CDS 30.0%
AAACCCATCATATGCAAGTT+AGG + Chr2:67880538-67880557 None:intergenic 35.0%
AACCCATCATATGCAAGTTA+GGG + Chr2:67880537-67880556 None:intergenic 35.0%
GATGAAGTAGAAGAATCTTG+AGG + Chr2:67880511-67880530 None:intergenic 35.0%
TGCTTGGCAAAATTCAGATA+TGG - Chr2:67880414-67880433 MsG0280010317.01.T01:CDS 35.0%
TTCATCATTCAAGTGGAAAC+TGG - Chr2:67880299-67880318 MsG0280010317.01.T01:CDS 35.0%
TTTCTTCTCATACCATGGAT+TGG - Chr2:67880563-67880582 MsG0280010317.01.T01:CDS 35.0%
! GAATTTTCCATGGAAGATCT+TGG + Chr2:67880451-67880470 None:intergenic 35.0%
!! AACTTGCATATGATGGGTTT+AGG - Chr2:67880538-67880557 MsG0280010317.01.T01:CDS 35.0%
AGGTCTTTCTTCTCATACCA+TGG - Chr2:67880558-67880577 MsG0280010317.01.T01:CDS 40.0%
ATCATTCAAGTGGAAACTGG+TGG - Chr2:67880302-67880321 MsG0280010317.01.T01:CDS 40.0%
TCATTCAAGTGGAAACTGGT+GGG - Chr2:67880303-67880322 MsG0280010317.01.T01:CDS 40.0%
! AGATGGTTGATTCCAATCCA+TGG + Chr2:67880578-67880597 None:intergenic 40.0%
! GACCCTAACTTGCATATGAT+GGG - Chr2:67880532-67880551 MsG0280010317.01.T01:CDS 40.0%
! TGACCCTAACTTGCATATGA+TGG - Chr2:67880531-67880550 MsG0280010317.01.T01:CDS 40.0%
Chromosome Type Strat End Strand Name
Chr2 gene 67880280 67880606 67880280 ID=MsG0280010317.01;Name=MsG0280010317.01
Chr2 mRNA 67880280 67880606 67880280 ID=MsG0280010317.01.T01;Parent=MsG0280010317.01;Name=MsG0280010317.01.T01;_AED=0.45;_eAED=0.45;_QI=0|-1|0|1|-1|1|1|0|108
Chr2 exon 67880280 67880606 67880280 ID=MsG0280010317.01.T01:exon:980;Parent=MsG0280010317.01.T01
Chr2 CDS 67880280 67880606 67880280 ID=MsG0280010317.01.T01:cds;Parent=MsG0280010317.01.T01
Gene Sequence

>MsG0280010317.01.T01

ATGGCTGATGATGATCAATTTCATCATTCAAGTGGAAACTGGTGGGACACAGCATCAAGAAATATGAGATTTAATCAAAGTGGAGGAACATCACAATCTTCTTCATCTTCCATAACCAACAACATAGTTGATTTTGCTTGGCAAAATTCAGATATGGTAGAAATAAAACCAAGATCTTCCATGGAAAATTCTTCTGTTGTTTTTCATGATAATCAGAAACTTCAACAACCTCAAGATTCTTCTACTTCATCTGACCCTAACTTGCATATGATGGGTTTAGGTCTTTCTTCTCATACCATGGATTGGAATCAACCATCTTTGATGTAA
Protein sequence

>MsG0280010317.01.T01

MADDDQFHHSSGNWWDTASRNMRFNQSGGTSQSSSSSITNNIVDFAWQNSDMVEIKPRSSMENSSVVFHDNQKLQQPQDSSTSSDPNLHMMGLGLSSHTMDWNQPSLM*