AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180001664.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180001664.01.T01 MTR_5g042420 94.915 59 1 1 1 59 156 212 5.25e-35 117
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180001664.01.T01 AT5G43750 83.051 59 8 1 1 59 156 212 8.04e-31 106

Find 16 sgRNAs with CRISPR-Local

Find 18 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTTGCTATAGAATAGAAAT+AGG 0.233160 1:+24881181 None:intergenic
TGGGATTTCAATGACAAATA+TGG 0.271183 1:-24881391 MsG0180001664.01.T01:CDS
CTTTCCATGTTGTATATTTG+AGG 0.297169 1:+24881460 None:intergenic
ACTATAATTCCATGAGCATA+TGG 0.355011 1:-24881411 MsG0180001664.01.T01:CDS
ATGACAAATATGGAGACCTT+TGG 0.379641 1:-24881381 MsG0180001664.01.T01:CDS
TGACAAATATGGAGACCTTT+GGG 0.407790 1:-24881380 MsG0180001664.01.T01:CDS
TCAAAGTGGTGAGGTTGATC+AGG 0.412034 1:+24881484 None:intergenic
TTTAAATATAATGAATATGA+AGG 0.419055 1:-24881270 MsG0180001664.01.T01:three_prime_UTR
TTTGCTATAGAATAGAAATA+GGG 0.431324 1:+24881182 None:intergenic
CAAATATACAACATGGAAAG+AGG 0.518390 1:-24881457 MsG0180001664.01.T01:CDS
CTATAATTCCATGAGCATAT+GGG 0.524970 1:-24881410 MsG0180001664.01.T01:CDS
ATTGAAATCCCATATGCTCA+TGG 0.535585 1:+24881402 None:intergenic
ATTTGAGGTTCAAAGTGGTG+AGG 0.601318 1:+24881475 None:intergenic
TCTTGATAGTAAAATCCCAA+AGG 0.630483 1:+24881365 None:intergenic
TGTATATTTGAGGTTCAAAG+TGG 0.644225 1:+24881470 None:intergenic
TGAACCTCAAATATACAACA+TGG 0.679208 1:-24881464 MsG0180001664.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTTAAATATAATGAATATGA+AGG - Chr1:24881377-24881396 MsG0180001664.01.T01:CDS 10.0%
!!! TTTGCTATAGAATAGAAATA+GGG + Chr1:24881468-24881487 None:intergenic 20.0%
!!! TTTTACTATCAAGAAGAATA+AGG - Chr1:24881291-24881310 MsG0180001664.01.T01:three_prime_UTR 20.0%
!!! GTTTGCTATAGAATAGAAAT+AGG + Chr1:24881469-24881488 None:intergenic 25.0%
ACTATAATTCCATGAGCATA+TGG - Chr1:24881236-24881255 MsG0180001664.01.T01:three_prime_UTR 30.0%
CAAATATACAACATGGAAAG+AGG - Chr1:24881190-24881209 MsG0180001664.01.T01:three_prime_UTR 30.0%
CTATAATTCCATGAGCATAT+GGG - Chr1:24881237-24881256 MsG0180001664.01.T01:three_prime_UTR 30.0%
CTTTCCATGTTGTATATTTG+AGG + Chr1:24881190-24881209 None:intergenic 30.0%
TGAACCTCAAATATACAACA+TGG - Chr1:24881183-24881202 MsG0180001664.01.T01:three_prime_UTR 30.0%
TGGGATTTCAATGACAAATA+TGG - Chr1:24881256-24881275 MsG0180001664.01.T01:three_prime_UTR 30.0%
! CTTTTGTCTATATATGTGCA+TGG - Chr1:24881349-24881368 MsG0180001664.01.T01:CDS 30.0%
! TCTTGATAGTAAAATCCCAA+AGG + Chr1:24881285-24881304 None:intergenic 30.0%
! TGTATATTTGAGGTTCAAAG+TGG + Chr1:24881180-24881199 None:intergenic 30.0%
ATGACAAATATGGAGACCTT+TGG - Chr1:24881266-24881285 MsG0180001664.01.T01:three_prime_UTR 35.0%
ATTGAAATCCCATATGCTCA+TGG + Chr1:24881248-24881267 None:intergenic 35.0%
TGACAAATATGGAGACCTTT+GGG - Chr1:24881267-24881286 MsG0180001664.01.T01:three_prime_UTR 35.0%
! ATTTGAGGTTCAAAGTGGTG+AGG + Chr1:24881175-24881194 None:intergenic 40.0%
! TCAAAGTGGTGAGGTTGATC+AGG + Chr1:24881166-24881185 None:intergenic 45.0%
Chromosome Type Strat End Strand Name
Chr1 gene 24881154 24881515 24881154 ID=MsG0180001664.01;Name=MsG0180001664.01
Chr1 mRNA 24881154 24881515 24881154 ID=MsG0180001664.01.T01;Parent=MsG0180001664.01;Name=MsG0180001664.01.T01;_AED=0.41;_eAED=0.49;_QI=0|0.75|0.6|1|0.75|0.6|5|182|59
Chr1 exon 24881154 24881515 24881154 ID=MsG0180001664.01.T01:exon:40825;Parent=MsG0180001664.01.T01
Chr1 CDS 24881336 24881515 24881336 ID=MsG0180001664.01.T01:cds;Parent=MsG0180001664.01.T01
Chr1 three_prime_UTR 24881154 24881335 24881154 ID=MsG0180001664.01.T01:three_prime_utr;Parent=MsG0180001664.01.T01
Gene Sequence

>MsG0180001664.01.T01

ATGGATAAACCTGATCAACCTCACCACTTTGAACCTCAAATATACAACATGGAAAGAGGAGCTAGAGACAAGTTGATAAATGACTATAATTCCATGAGCATATGGGATTTCAATGACAAATATGGAGACCTTTGGGATTTTACTATCAAGAAGAATAAGGATGACATAATGAAGAGATAA

Protein sequence

>MsG0180001664.01.T01

MDKPDQPHHFEPQIYNMERGARDKLINDYNSMSIWDFNDKYGDLWDFTIKKNKDDIMKR*