AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180000821.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180000821.01.T01 MTR_1g007800 76.744 129 25 1 1 129 1 124 1.05e-64 197
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180000821.01.T01 AT3G01980 47.541 122 58 2 1 121 1 117 2.99e-35 120
MsG0180000821.01.T01 AT3G01980 47.541 122 58 2 1 121 1 117 1.51e-34 120
MsG0180000821.01.T01 AT3G01980 47.541 122 58 2 1 121 1 117 1.51e-34 120
MsG0180000821.01.T01 AT3G01980 54.000 100 45 1 1 99 1 100 4.16e-33 115
MsG0180000821.01.T01 AT3G01980 54.000 100 45 1 1 99 1 100 1.96e-32 115
MsG0180000821.01.T01 AT3G01980 40.860 93 49 2 30 121 6 93 1.83e-17 75.9

Find 16 sgRNAs with CRISPR-Local

Find 28 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGATAAAGCTTGTAAAATTT+TGG 0.076813 1:+11665611 MsG0180000821.01.T01:CDS
TACAAAATCAAATAAAATAA+TGG 0.287692 1:-11665685 None:intergenic
GGAAGTGGTTGAATTGGATA+TGG 0.334118 1:+11665554 MsG0180000821.01.T01:CDS
TTCACACCTGCATCCTTGTT+TGG 0.341452 1:-11665367 None:intergenic
AGAAATATCGTCGCCATTAG+AGG 0.371340 1:-11665322 None:intergenic
TGTTGTGGAAGTGGTTGAAT+TGG 0.391516 1:+11665548 MsG0180000821.01.T01:CDS
TTGTGAAACACGTTCTTGTT+TGG 0.409510 1:-11665159 None:intergenic
GTGAGTAATACTCTCTTTGT+TGG 0.410502 1:-11665300 None:intergenic
GTTAATTGTTATTCTTATGA+AGG 0.411867 1:+11665651 MsG0180000821.01.T01:CDS
AGAGTATTACTCACCTCTAA+TGG 0.413408 1:+11665309 MsG0180000821.01.T01:CDS
TACTGATTCTGTTGTGGAAG+TGG 0.440619 1:+11665539 MsG0180000821.01.T01:CDS
ATTTAGCCAAACAAGGATGC+AGG 0.531939 1:+11665361 MsG0180000821.01.T01:CDS
TTCAGTTACTGATTCTGTTG+TGG 0.546092 1:+11665533 MsG0180000821.01.T01:CDS
GAATTCGTTTCAATGCTCAC+TGG 0.560107 1:-11665261 None:intergenic
GCTTTCAATTTAGCCAAACA+AGG 0.601130 1:+11665354 MsG0180000821.01.T01:CDS
AATGGCGACGATATTTCTCA+TGG 0.613815 1:+11665327 MsG0180000821.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TACAAAATCAAATAAAATAA+TGG - Chr1:11665688-11665707 None:intergenic 10.0%
!!! AAATTTTTTGTGTATTTTTA+GGG + Chr1:11665455-11665474 MsG0180000821.01.T01:intron 10.0%
!!! TAAATTTTTTGTGTATTTTT+AGG + Chr1:11665454-11665473 MsG0180000821.01.T01:intron 10.0%
!! AATCGAAAAAAAAAAAATGA+AGG - Chr1:11665412-11665431 None:intergenic 15.0%
!!! ATAAAGCTTGTAAAATTTTG+GGG + Chr1:11665613-11665632 MsG0180000821.01.T01:CDS 20.0%
!!! GATAAAGCTTGTAAAATTTT+GGG + Chr1:11665612-11665631 MsG0180000821.01.T01:CDS 20.0%
!!! GTTAATTGTTATTCTTATGA+AGG + Chr1:11665651-11665670 MsG0180000821.01.T01:CDS 20.0%
!!! TGATAAAGCTTGTAAAATTT+TGG + Chr1:11665611-11665630 MsG0180000821.01.T01:CDS 20.0%
!! AAGTATTGCACGAAAAATAA+CGG + Chr1:11665509-11665528 MsG0180000821.01.T01:CDS 25.0%
!!! TTGTAAAATTTTGGGGAAAT+TGG + Chr1:11665620-11665639 MsG0180000821.01.T01:CDS 25.0%
!!! TTTTTTGTGTATTTTTAGGG+TGG + Chr1:11665458-11665477 MsG0180000821.01.T01:intron 25.0%
!! TGAATCTGTTTTTCATGATG+CGG + Chr1:11665587-11665606 MsG0180000821.01.T01:CDS 30.0%
!!! AGCTTTTTCATAAGCTATCT+TGG - Chr1:11665742-11665761 None:intergenic 30.0%
!!! ATTTTTAGGGTGGTTTTGAT+GGG + Chr1:11665468-11665487 MsG0180000821.01.T01:intron 30.0%
!!! TATTTTTAGGGTGGTTTTGA+TGG + Chr1:11665467-11665486 MsG0180000821.01.T01:intron 30.0%
GCTTTCAATTTAGCCAAACA+AGG + Chr1:11665354-11665373 MsG0180000821.01.T01:CDS 35.0%
GTGAGTAATACTCTCTTTGT+TGG - Chr1:11665303-11665322 None:intergenic 35.0%
! AGAGTATTACTCACCTCTAA+TGG + Chr1:11665309-11665328 MsG0180000821.01.T01:CDS 35.0%
!! TTCAGTTACTGATTCTGTTG+TGG + Chr1:11665533-11665552 MsG0180000821.01.T01:CDS 35.0%
AATGGCGACGATATTTCTCA+TGG + Chr1:11665327-11665346 MsG0180000821.01.T01:CDS 40.0%
AGAAATATCGTCGCCATTAG+AGG - Chr1:11665325-11665344 None:intergenic 40.0%
ATTTAGCCAAACAAGGATGC+AGG + Chr1:11665361-11665380 MsG0180000821.01.T01:CDS 40.0%
GAATTCGTTTCAATGCTCAC+TGG - Chr1:11665264-11665283 None:intergenic 40.0%
GGAAGTGGTTGAATTGGATA+TGG + Chr1:11665554-11665573 MsG0180000821.01.T01:CDS 40.0%
TGTTGTGGAAGTGGTTGAAT+TGG + Chr1:11665548-11665567 MsG0180000821.01.T01:CDS 40.0%
!! TACTGATTCTGTTGTGGAAG+TGG + Chr1:11665539-11665558 MsG0180000821.01.T01:CDS 40.0%
TTCACACCTGCATCCTTGTT+TGG - Chr1:11665370-11665389 None:intergenic 45.0%
!!! TAGGGTGGTTTTGATGGGAG+AGG + Chr1:11665473-11665492 MsG0180000821.01.T01:intron 50.0%
Chromosome Type Strat End Strand Name
Chr1 gene 11665161 11665773 11665161 ID=MsG0180000821.01;Name=MsG0180000821.01
Chr1 mRNA 11665161 11665773 11665161 ID=MsG0180000821.01.T01;Parent=MsG0180000821.01;Name=MsG0180000821.01.T01;_AED=0.45;_eAED=0.45;_QI=130|1|0.5|1|1|1|2|0|129
Chr1 exon 11665476 11665773 11665476 ID=MsG0180000821.01.T01:exon:656;Parent=MsG0180000821.01.T01
Chr1 exon 11665161 11665382 11665161 ID=MsG0180000821.01.T01:exon:655;Parent=MsG0180000821.01.T01
Chr1 five_prime_UTR 11665161 11665290 11665161 ID=MsG0180000821.01.T01:five_prime_utr;Parent=MsG0180000821.01.T01
Chr1 CDS 11665291 11665382 11665291 ID=MsG0180000821.01.T01:cds;Parent=MsG0180000821.01.T01
Chr1 CDS 11665476 11665773 11665476 ID=MsG0180000821.01.T01:cds;Parent=MsG0180000821.01.T01
Gene Sequence

>MsG0180000821.01.T01

ATGACGAATCCAACAAAGAGAGTATTACTCACCTCTAATGGCGACGATATTTCTCATGGCATTGCTTTCAATTTAGCCAAACAAGGATGCAGGGTGGTTTTGATGGGAGAGGCAAGTAGCTTACGAAGTATTGCACGAAAAATAACGGATTCAGTTACTGATTCTGTTGTGGAAGTGGTTGAATTGGATATGGAGAATGAAAATGAATCTGTTTTTCATGATGCGGTTGATAAAGCTTGTAAAATTTTGGGGAAATTGGATGCTTTTGTTAATTGTTATTCTTATGAAGGTAAAATCAATACCATTATTTTATTTGATTTTGTAAAATTCAGTAATAAGTTAAGTTATAAGTTATCCAAGATAGCTTATGAAAAAGCTTATAGTTTATAG

Protein sequence

>MsG0180000821.01.T01

MTNPTKRVLLTSNGDDISHGIAFNLAKQGCRVVLMGEASSLRSIARKITDSVTDSVVEVVELDMENENESVFHDAVDKACKILGKLDAFVNCYSYEGKINTIILFDFVKFSNKLSYKLSKIAYEKAYSL*