AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580028335.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580028335.01.T02 MTR_5g067410 100.000 30 0 0 1 30 513 542 2.84e-14 63.5
MsG0580028335.01.T02 MTR_3g111190 92.593 27 2 0 1 27 502 528 2.67e-11 55.1
MsG0580028335.01.T02 MTR_3g111190 92.593 27 2 0 1 27 406 432 3.01e-11 55.1
MsG0580028335.01.T01 MTR_5g067410 100.000 55 0 0 1 55 488 542 3.46e-33 118
MsG0580028335.01.T01 MTR_3g111190 92.308 52 4 0 1 52 381 432 2.68e-29 106
MsG0580028335.01.T01 MTR_3g111190 92.308 52 4 0 1 52 477 528 4.38e-29 106
MsG0580028335.01.T01 MTR_4g092820 67.308 52 17 0 1 52 475 526 3.53e-21 84.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580028335.01.T01 AT1G09940 75.472 53 11 1 1 53 480 530 1.60e-22 88.6
MsG0580028335.01.T01 AT1G58290 73.585 53 12 1 1 53 491 541 2.26e-21 85.1
MsG0580028335.01.T01 AT2G31250 52.830 53 23 1 1 53 474 524 4.70e-11 55.8

Find 10 sgRNAs with CRISPR-Local

Find 8 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGAAACTGAGGTTTCTGTTT+TGG 0.219895 5:-78515510 MsG0580028335.01.T01:CDS
GGAGCAGAAGATTAGAGCTA+AGG 0.475137 5:-78515489 MsG0580028335.01.T01:CDS
ATTGTGAATAAAATGCTTCA+TGG 0.487727 5:-78515626 None:intergenic
TCACATCTCAAATGTTGCAT+TGG 0.531540 5:+78515602 None:intergenic
GCAGAAGATTAGAGCTAAGG+TGG 0.550559 5:-78515486 MsG0580028335.01.T01:CDS
ATGCAACATTTGAGATGTGA+TGG 0.556625 5:-78515599 MsG0580028335.01.T01:CDS
AATGTTTAGTCTTGAAACTG+AGG 0.579905 5:-78515522 MsG0580028335.01.T01:CDS
GATGTGATGGGAGTGATAGT+AGG 0.608822 5:-78515586 MsG0580028335.01.T01:CDS
GTGTCATATTAATCTTACTG+TGG 0.617221 5:+78515455 None:intergenic
TGCAACATTTGAGATGTGAT+GGG 0.668284 5:-78515598 MsG0580028335.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATGTTTAGTCTTGAAACTG+AGG - Chr5:78515561-78515580 MsG0580028335.01.T01:CDS 30.0%
TCACATCTCAAATGTTGCAT+TGG + Chr5:78515484-78515503 None:intergenic 35.0%
! ATGCAACATTTGAGATGTGA+TGG - Chr5:78515484-78515503 MsG0580028335.01.T01:CDS 35.0%
! TGAAACTGAGGTTTCTGTTT+TGG - Chr5:78515573-78515592 MsG0580028335.01.T01:CDS 35.0%
! TGCAACATTTGAGATGTGAT+GGG - Chr5:78515485-78515504 MsG0580028335.01.T01:CDS 35.0%
GCAGAAGATTAGAGCTAAGG+TGG - Chr5:78515597-78515616 MsG0580028335.01.T01:CDS 45.0%
GGAGCAGAAGATTAGAGCTA+AGG - Chr5:78515594-78515613 MsG0580028335.01.T01:CDS 45.0%
! GATGTGATGGGAGTGATAGT+AGG - Chr5:78515497-78515516 MsG0580028335.01.T01:CDS 45.0%
Chromosome Type Strat End Strand Name
Chr5 gene 78515469 78515636 78515469 ID=MsG0580028335.01;Name=MsG0580028335.01
Chr5 mRNA 78515469 78515636 78515469 ID=MsG0580028335.01.T01;Parent=MsG0580028335.01;Name=MsG0580028335.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|55
Chr5 exon 78515469 78515636 78515469 ID=MsG0580028335.01.T01:exon:9590;Parent=MsG0580028335.01.T01
Chr5 CDS 78515469 78515636 78515469 ID=MsG0580028335.01.T01:cds;Parent=MsG0580028335.01.T01
Chr5 mRNA 78515469 78515561 78515469 ID=MsG0580028335.01.T02;Parent=MsG0580028335.01;Name=MsG0580028335.01.T02;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|30
Chr5 exon 78515469 78515561 78515469 ID=MsG0580028335.01.T02:exon:9591;Parent=MsG0580028335.01.T02
Chr5 CDS 78515469 78515561 78515469 ID=MsG0580028335.01.T02:cds;Parent=MsG0580028335.01.T02
Gene Sequence

>MsG0580028335.01.T02

ATGCATGCTTTGAACAGAATGTTTAGTCTTGAAACTGAGGTTTCTGTTTTGGAGCAGAAGATTAGAGCTAAGGTGGAGCAAAAACCACAGTAA

>MsG0580028335.01.T01

ATGCTTCATGGTCCAATGCAACATTTGAGATGTGATGGGAGTGATAGTAGGACTTTGAGTGAGACACTTGAGAATATGCATGCTTTGAACAGAATGTTTAGTCTTGAAACTGAGGTTTCTGTTTTGGAGCAGAAGATTAGAGCTAAGGTGGAGCAAAAACCACAGTAA

Protein sequence

>MsG0580028335.01.T02

MHALNRMFSLETEVSVLEQKIRAKVEQKPQ*

>MsG0580028335.01.T01

MLHGPMQHLRCDGSDSRTLSETLENMHALNRMFSLETEVSVLEQKIRAKVEQKPQ*