AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780036486.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780036486.01.T01 MTR_4g076090 97.059 68 2 0 1 68 1 68 1.81e-44 137
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780036486.01.T01 AT3G22210 62.500 64 23 1 5 68 6 68 1.55e-20 77.0

Find 17 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAATTCGCTCTTCCAGTATT+GGG 0.341545 7:+8823262 MsG0780036486.01.T01:CDS
GTCTTCTAGCTCGCCTCTCT+CGG 0.346161 7:-8823493 None:intergenic
GACAGAAATCACTTCAAGAT+TGG 0.349085 7:+8823423 MsG0780036486.01.T01:intron
GCCGCAACAATGCCCAATAC+TGG 0.366936 7:-8823274 None:intergenic
AGCTCGCCTCTCTCGGGAGC+TGG 0.374844 7:-8823486 None:intergenic
GCAATTCGCTCTTCCAGTAT+TGG 0.399436 7:+8823261 MsG0780036486.01.T01:CDS
CTCTCTCGGGAGCTGGATGT+TGG 0.452110 7:-8823479 None:intergenic
AGTAGCAAATTGTTTGTACT+AGG 0.459932 7:+8823628 MsG0780036486.01.T01:three_prime_UTR
TCCAGTATTGGGCATTGTTG+CGG 0.480204 7:+8823273 MsG0780036486.01.T01:CDS
ACAGAAATCACTTCAAGATT+GGG 0.482353 7:+8823424 MsG0780036486.01.T01:intron
ATTGAAACTCACTGCATAGA+AGG 0.485260 7:-8823308 None:intergenic
TCTTCTAGCTCGCCTCTCTC+GGG 0.500761 7:-8823492 None:intergenic
ACTAACAAGAACTATTGAAA+AGG 0.512776 7:-8823659 None:intergenic
GATGATTCTGAATCAGAGAA+TGG 0.538128 7:+8823446 MsG0780036486.01.T01:CDS
CAACATCCAGCTCCCGAGAG+AGG 0.612999 7:+8823480 MsG0780036486.01.T01:CDS
GAGTTTCAATGAGATTAGAG+AGG 0.641117 7:+8823321 MsG0780036486.01.T01:CDS
GATTCTGAATCAGAGAATGG+AGG 0.645594 7:+8823449 MsG0780036486.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTTCTTAATTTTTGATGCT+TGG + Chr7:8823588-8823607 MsG0780036486.01.T01:three_prime_UTR 20.0%
!!! CTGTCATAATTCAATTTTAT+AGG - Chr7:8823408-8823427 None:intergenic 20.0%
! ACTAACAAGAACTATTGAAA+AGG - Chr7:8823662-8823681 None:intergenic 25.0%
!!! CATTTGTCGAAGTTATTTTT+TGG - Chr7:8823534-8823553 None:intergenic 25.0%
ACAGAAATCACTTCAAGATT+GGG + Chr7:8823424-8823443 MsG0780036486.01.T01:intron 30.0%
AGTAGCAAATTGTTTGTACT+AGG + Chr7:8823628-8823647 MsG0780036486.01.T01:three_prime_UTR 30.0%
ATTGAAACTCACTGCATAGA+AGG - Chr7:8823311-8823330 None:intergenic 35.0%
GACAGAAATCACTTCAAGAT+TGG + Chr7:8823423-8823442 MsG0780036486.01.T01:intron 35.0%
GAGTTTCAATGAGATTAGAG+AGG + Chr7:8823321-8823340 MsG0780036486.01.T01:CDS 35.0%
GATGATTCTGAATCAGAGAA+TGG + Chr7:8823446-8823465 MsG0780036486.01.T01:CDS 35.0%
CAATTCGCTCTTCCAGTATT+GGG + Chr7:8823262-8823281 MsG0780036486.01.T01:CDS 40.0%
GATTCTGAATCAGAGAATGG+AGG + Chr7:8823449-8823468 MsG0780036486.01.T01:CDS 40.0%
GCAATTCGCTCTTCCAGTAT+TGG + Chr7:8823261-8823280 MsG0780036486.01.T01:CDS 45.0%
! TCCAGTATTGGGCATTGTTG+CGG + Chr7:8823273-8823292 MsG0780036486.01.T01:CDS 45.0%
GCCGCAACAATGCCCAATAC+TGG - Chr7:8823277-8823296 None:intergenic 55.0%
!! GTCTTCTAGCTCGCCTCTCT+CGG - Chr7:8823496-8823515 None:intergenic 55.0%
!! TCTTCTAGCTCGCCTCTCTC+GGG - Chr7:8823495-8823514 None:intergenic 55.0%
CAACATCCAGCTCCCGAGAG+AGG + Chr7:8823480-8823499 MsG0780036486.01.T01:CDS 60.0%
CTCTCTCGGGAGCTGGATGT+TGG - Chr7:8823482-8823501 None:intergenic 60.0%
AGCTCGCCTCTCTCGGGAGC+TGG - Chr7:8823489-8823508 None:intergenic 70.0%
Chromosome Type Strat End Strand Name
Chr7 gene 8823250 8823687 8823250 ID=MsG0780036486.01;Name=MsG0780036486.01
Chr7 mRNA 8823250 8823687 8823250 ID=MsG0780036486.01.T01;Parent=MsG0780036486.01;Name=MsG0780036486.01.T01;_AED=0.03;_eAED=0.03;_QI=0|1|0.5|1|0|0|2|146|68
Chr7 exon 8823250 8823342 8823250 ID=MsG0780036486.01.T01:exon:10185;Parent=MsG0780036486.01.T01
Chr7 exon 8823428 8823687 8823428 ID=MsG0780036486.01.T01:exon:10186;Parent=MsG0780036486.01.T01
Chr7 CDS 8823250 8823342 8823250 ID=MsG0780036486.01.T01:cds;Parent=MsG0780036486.01.T01
Chr7 CDS 8823428 8823541 8823428 ID=MsG0780036486.01.T01:cds;Parent=MsG0780036486.01.T01
Chr7 three_prime_UTR 8823542 8823687 8823542 ID=MsG0780036486.01.T01:three_prime_utr;Parent=MsG0780036486.01.T01
Gene Sequence

>MsG0780036486.01.T01

ATGGATGCAATGCAATTCGCTCTTCCAGTATTGGGCATTGTTGCGGCTGCAGCAGTGACCTTCTATGCAGTGAGTTTCAATGAGATTAGAGAGAAATCACTTCAAGATTGGGATGATTCTGAATCAGAGAATGGAGGTTTTAGACCAACATCCAGCTCCCGAGAGAGGCGAGCTAGAAGACAAGCTAGTAAAAATACCAAAAAATAA

Protein sequence

>MsG0780036486.01.T01

MDAMQFALPVLGIVAAAAVTFYAVSFNEIREKSLQDWDDSESENGGFRPTSSSRERRARRQASKNTKK*