AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580029236.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580029236.01.T01 MTR_5g083160 97.436 156 4 0 1 156 449 604 5.81e-107 317
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580029236.01.T01 AT5G05480 39.597 149 86 2 1 146 431 578 3.28e-30 115

Find 28 sgRNAs with CRISPR-Local

Find 32 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTCACAGTAATAACTCTTAA+AGG 0.253820 5:+94150496 None:intergenic
ATAAGTTAAGTTGTTATAAT+CGG 0.326112 5:-94150282 MsG0580029236.01.T01:CDS
TGAGGAGAAGTATGAAGGTA+AGG 0.384813 5:-94150416 MsG0580029236.01.T01:CDS
CTTGCGTTTAACCTTCAACT+TGG 0.392585 5:+94150522 None:intergenic
CGGAATGTTGCTGCTTCTAA+TGG 0.392739 5:-94150262 MsG0580029236.01.T01:CDS
TGAAATGATTTCCAAGTTGA+AGG 0.414580 5:-94150533 MsG0580029236.01.T01:CDS
CTTCTTACTGATTTATCTCA+TGG 0.430948 5:-94150442 MsG0580029236.01.T01:CDS
CATGACCACCGTTGTTTCAA+AGG 0.432284 5:-94150662 MsG0580029236.01.T01:CDS
GTTAAGGTGTTTGATAATAG+AGG 0.433603 5:-94150556 MsG0580029236.01.T01:CDS
ATGACCACCGTTGTTTCAAA+GGG 0.462114 5:-94150661 MsG0580029236.01.T01:CDS
GTTATAAAGTTTAAAAGCAA+TGG 0.462481 5:-94150622 MsG0580029236.01.T01:CDS
GAACCTCATGGTTTGGATGA+TGG 0.464831 5:-94150472 MsG0580029236.01.T01:CDS
ACATTCAGTTAGTAATGAAC+AGG 0.467291 5:-94150386 MsG0580029236.01.T01:CDS
TGTGACAGAACCTCATGGTT+TGG 0.467738 5:-94150479 MsG0580029236.01.T01:CDS
GAGGAGAAGTATGAAGGTAA+GGG 0.494930 5:-94150415 MsG0580029236.01.T01:CDS
ATGGGTCATTCTGTTCTAGA+TGG 0.495557 5:-94150340 MsG0580029236.01.T01:CDS
AAGCAATGGAACTTATAAGA+TGG 0.502066 5:-94150608 MsG0580029236.01.T01:CDS
AAAGGGTTGGATTAATGTGA+TGG 0.513860 5:-94150359 MsG0580029236.01.T01:CDS
TAGTAATGAACAGGAATCAA+AGG 0.518491 5:-94150377 MsG0580029236.01.T01:CDS
TTGTTGCACAAGAAATTACA+TGG 0.518769 5:+94150198 None:intergenic
ATGTTGCTGCTTCTAATGGC+AGG 0.521721 5:-94150258 MsG0580029236.01.T01:CDS
ATGAACAGGAATCAAAGGGT+TGG 0.545499 5:-94150372 MsG0580029236.01.T01:CDS
AGTAATGAACAGGAATCAAA+GGG 0.556433 5:-94150376 MsG0580029236.01.T01:CDS
ACTGAATCCCTTTGAAACAA+CGG 0.595279 5:+94150654 None:intergenic
AAGGGTTGGATTAATGTGAT+GGG 0.604286 5:-94150358 MsG0580029236.01.T01:CDS
ATTACTGTGACAGAACCTCA+TGG 0.628439 5:-94150484 MsG0580029236.01.T01:CDS
TATCCATCATCCAAACCATG+AGG 0.716504 5:+94150469 None:intergenic
GAATCCCTTTGAAACAACGG+TGG 0.730643 5:+94150657 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATAAGTTAAGTTGTTATAAT+CGG - Chr5:94150592-94150611 MsG0580029236.01.T01:CDS 15.0%
!! GTTATAAAGTTTAAAAGCAA+TGG - Chr5:94150252-94150271 MsG0580029236.01.T01:CDS 20.0%
!! GAAATTTAAAGCCAAAAAGA+AGG - Chr5:94150296-94150315 MsG0580029236.01.T01:CDS 25.0%
AAGCAATGGAACTTATAAGA+TGG - Chr5:94150266-94150285 MsG0580029236.01.T01:CDS 30.0%
ACATTCAGTTAGTAATGAAC+AGG - Chr5:94150488-94150507 MsG0580029236.01.T01:CDS 30.0%
AGTAATGAACAGGAATCAAA+GGG - Chr5:94150498-94150517 MsG0580029236.01.T01:CDS 30.0%
GTCACAGTAATAACTCTTAA+AGG + Chr5:94150381-94150400 None:intergenic 30.0%
TAAAGCCAAAAAGAAGGTTA+AGG - Chr5:94150302-94150321 MsG0580029236.01.T01:CDS 30.0%
TAGTAATGAACAGGAATCAA+AGG - Chr5:94150497-94150516 MsG0580029236.01.T01:CDS 30.0%
! AAACACCTTAACCTTCTTTT+TGG + Chr5:94150310-94150329 None:intergenic 30.0%
! GTTAAGGTGTTTGATAATAG+AGG - Chr5:94150318-94150337 MsG0580029236.01.T01:CDS 30.0%
! TGAAATGATTTCCAAGTTGA+AGG - Chr5:94150341-94150360 MsG0580029236.01.T01:CDS 30.0%
! TTTCAAAGGGATTCAGTTTT+AGG - Chr5:94150226-94150245 MsG0580029236.01.T01:CDS 30.0%
!! CTTCTTACTGATTTATCTCA+TGG - Chr5:94150432-94150451 MsG0580029236.01.T01:CDS 30.0%
!! TGATTTATCTCATGGTTTTG+AGG - Chr5:94150440-94150459 MsG0580029236.01.T01:CDS 30.0%
AAAGGGTTGGATTAATGTGA+TGG - Chr5:94150515-94150534 MsG0580029236.01.T01:CDS 35.0%
AAGGGTTGGATTAATGTGAT+GGG - Chr5:94150516-94150535 MsG0580029236.01.T01:CDS 35.0%
!! ACTGAATCCCTTTGAAACAA+CGG + Chr5:94150223-94150242 None:intergenic 35.0%
ATGAACAGGAATCAAAGGGT+TGG - Chr5:94150502-94150521 MsG0580029236.01.T01:CDS 40.0%
ATTACTGTGACAGAACCTCA+TGG - Chr5:94150390-94150409 MsG0580029236.01.T01:CDS 40.0%
CTTGCGTTTAACCTTCAACT+TGG + Chr5:94150355-94150374 None:intergenic 40.0%
TATCCATCATCCAAACCATG+AGG + Chr5:94150408-94150427 None:intergenic 40.0%
! ATGACCACCGTTGTTTCAAA+GGG - Chr5:94150213-94150232 MsG0580029236.01.T01:CDS 40.0%
! ATGGGTCATTCTGTTCTAGA+TGG - Chr5:94150534-94150553 MsG0580029236.01.T01:CDS 40.0%
! GAGGAGAAGTATGAAGGTAA+GGG - Chr5:94150459-94150478 MsG0580029236.01.T01:CDS 40.0%
! TGAGGAGAAGTATGAAGGTA+AGG - Chr5:94150458-94150477 MsG0580029236.01.T01:CDS 40.0%
!!! GGTTTTGAGGAGAAGTATGA+AGG - Chr5:94150453-94150472 MsG0580029236.01.T01:CDS 40.0%
TGTGACAGAACCTCATGGTT+TGG - Chr5:94150395-94150414 MsG0580029236.01.T01:CDS 45.0%
! ATGTTGCTGCTTCTAATGGC+AGG - Chr5:94150616-94150635 MsG0580029236.01.T01:CDS 45.0%
! CGGAATGTTGCTGCTTCTAA+TGG - Chr5:94150612-94150631 MsG0580029236.01.T01:CDS 45.0%
! GAACCTCATGGTTTGGATGA+TGG - Chr5:94150402-94150421 MsG0580029236.01.T01:CDS 45.0%
!! GAATCCCTTTGAAACAACGG+TGG + Chr5:94150220-94150239 None:intergenic 45.0%
Chromosome Type Strat End Strand Name
Chr5 gene 94150213 94150683 94150213 ID=MsG0580029236.01;Name=MsG0580029236.01
Chr5 mRNA 94150213 94150683 94150213 ID=MsG0580029236.01.T01;Parent=MsG0580029236.01;Name=MsG0580029236.01.T01;_AED=0.40;_eAED=0.40;_QI=0|-1|0|1|-1|0|1|0|156
Chr5 exon 94150213 94150683 94150213 ID=MsG0580029236.01.T01:exon:49859;Parent=MsG0580029236.01.T01
Chr5 CDS 94150213 94150683 94150213 ID=MsG0580029236.01.T01:cds;Parent=MsG0580029236.01.T01
Gene Sequence

>MsG0580029236.01.T01

ATGACCACCGTTGTTTCAAAGGGATTCAGTTTTAGGAATGTTATAAAGTTTAAAAGCAATGGAACTTATAAGATGGTTAAGCAGAAATTTAAAGCCAAAAAGAAGGTTAAGGTGTTTGATAATAGAGGTGAAATGATTTCCAAGTTGAAGGTTAAACGCAAGTATCCTTTAAGAGTTATTACTGTGACAGAACCTCATGGTTTGGATGATGGATATAAGCTTCTTACTGATTTATCTCATGGTTTTGAGGAGAAGTATGAAGGTAAGGGATTCATACATTCAGTTAGTAATGAACAGGAATCAAAGGGTTGGATTAATGTGATGGGTCATTCTGTTCTAGATGGTCATGCAAGTACTATGCAAAATTATAGTTATGTTGATAAGTTAAGTTGTTATAATCGGAATGTTGCTGCTTCTAATGGCAGGATTGTTGCTGACAAGTCAAATTTCATTTGTGAAAATGCCATGTAA

Protein sequence

>MsG0580029236.01.T01

MTTVVSKGFSFRNVIKFKSNGTYKMVKQKFKAKKKVKVFDNRGEMISKLKVKRKYPLRVITVTEPHGLDDGYKLLTDLSHGFEEKYEGKGFIHSVSNEQESKGWINVMGHSVLDGHASTMQNYSYVDKLSCYNRNVAASNGRIVADKSNFICENAM*