AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0080049079.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0080049079.01.T01 MTR_6g092730 100.000 70 0 0 1 70 1 70 1.76e-47 145
MsG0080049079.01.T01 MTR_3g035590 98.571 70 1 0 1 70 1 70 3.00e-46 141
MsG0080049079.01.T01 MTR_0002s0590 92.453 53 4 0 18 70 282 334 3.01e-30 108
MsG0080049079.01.T01 MTR_4g051210 100.000 46 0 0 25 70 77 122 1.25e-28 99.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0080049079.01.T01 ATCG00360 86.000 50 7 0 21 70 77 126 3.19e-26 93.2

Find 27 sgRNAs with CRISPR-Local

Find 26 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACTCTCAAGTACGGTTCTA+AGG 0.265886 contig65end:-8494 MsG0080049079.01.T01:CDS
TTGATCAAGCCGCTGAATAT+TGG 0.308340 contig65end:-8393 MsG0080049079.01.T01:CDS
CTGTTCTCCGCGGTCGGAAT+AGG 0.311511 contig65end:+8456 None:intergenic
ATTCTGAAATTGCGGAATCT+TGG 0.383817 contig65end:-8417 MsG0080049079.01.T01:CDS
ATTATATTGAAGCACAGAAT+TGG 0.407853 contig65end:-8342 MsG0080049079.01.T01:CDS
CTATTCCGACCGCGGAGAAC+AGG 0.412079 contig65end:-8455 MsG0080049079.01.T01:CDS
CAATATAATTCCCAGGGGTA+AGG 0.423950 contig65end:+8356 None:intergenic
CGGAGAACAGGCCATTCGAC+AGG 0.449760 contig65end:-8443 MsG0080049079.01.T01:CDS
ACTGTTGAGCCGTATGAGTC+AGG 0.464317 contig65end:-8518 None:intergenic
CAGAATTGGTTGAAGATCAC+AGG 0.505448 contig65end:-8328 MsG0080049079.01.T01:CDS
CAAGCTATAGCCCTTACCCC+TGG 0.522286 contig65end:-8367 MsG0080049079.01.T01:CDS
TGTGCTTCAATATAATTCCC+AGG 0.522936 contig65end:+8349 None:intergenic
AATATAATTCCCAGGGGTAA+GGG 0.530205 contig65end:+8357 None:intergenic
ACTCTCAAGTACGGTTCTAA+GGG 0.543497 contig65end:-8493 MsG0080049079.01.T01:CDS
AATGGCCTGTTCTCCGCGGT+CGG 0.545774 contig65end:+8450 None:intergenic
GTGCTTCAATATAATTCCCA+GGG 0.548774 contig65end:+8350 None:intergenic
TTCAGAATCTCCCTGTCGAA+TGG 0.562027 contig65end:+8432 None:intergenic
AAGCTATAGCCCTTACCCCT+GGG 0.575228 contig65end:-8366 MsG0080049079.01.T01:CDS
AGCTTGTTTCCAATATTCAG+CGG 0.581772 contig65end:+8384 None:intergenic
AGTCAGGAAACTCTCAAGTA+CGG 0.591143 contig65end:-8502 MsG0080049079.01.T01:CDS
ACAGGGAGATTCTGAAATTG+CGG 0.592934 contig65end:-8425 MsG0080049079.01.T01:CDS
TCAAGTACGGTTCTAAGGGA+AGG 0.605491 contig65end:-8489 MsG0080049079.01.T01:CDS
GGAGAACAGGCCATTCGACA+GGG 0.615464 contig65end:-8442 MsG0080049079.01.T01:CDS
GTCGAATGGCCTGTTCTCCG+CGG 0.644787 contig65end:+8446 None:intergenic
TTACTCACCTATTCCGACCG+CGG 0.663047 contig65end:-8463 MsG0080049079.01.T01:CDS
AGAATTGGTTGAAGATCACA+GGG 0.667313 contig65end:-8327 MsG0080049079.01.T01:CDS
TGCTTCAATATAATTCCCAG+GGG 0.722159 contig65end:+8351 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATTATATTGAAGCACAGAAT+TGG - contig65end:8478-8497 MsG0080049079.01.T01:CDS 25.0%
AATATAATTCCCAGGGGTAA+GGG + contig65end:8466-8485 None:intergenic 35.0%
AGAATTGGTTGAAGATCACA+GGG - contig65end:8493-8512 MsG0080049079.01.T01:CDS 35.0%
GTGCTTCAATATAATTCCCA+GGG + contig65end:8473-8492 None:intergenic 35.0%
TGCTTCAATATAATTCCCAG+GGG + contig65end:8472-8491 None:intergenic 35.0%
TGTGCTTCAATATAATTCCC+AGG + contig65end:8474-8493 None:intergenic 35.0%
! AGCTTGTTTCCAATATTCAG+CGG + contig65end:8439-8458 None:intergenic 35.0%
!! ATTCTGAAATTGCGGAATCT+TGG - contig65end:8403-8422 MsG0080049079.01.T01:CDS 35.0%
AACTCTCAAGTACGGTTCTA+AGG - contig65end:8326-8345 MsG0080049079.01.T01:CDS 40.0%
AGTCAGGAAACTCTCAAGTA+CGG - contig65end:8318-8337 MsG0080049079.01.T01:CDS 40.0%
CAATATAATTCCCAGGGGTA+AGG + contig65end:8467-8486 None:intergenic 40.0%
CAGAATTGGTTGAAGATCAC+AGG - contig65end:8492-8511 MsG0080049079.01.T01:CDS 40.0%
TTGATCAAGCCGCTGAATAT+TGG - contig65end:8427-8446 MsG0080049079.01.T01:CDS 40.0%
! ACTCTCAAGTACGGTTCTAA+GGG - contig65end:8327-8346 MsG0080049079.01.T01:CDS 40.0%
!! ACAGGGAGATTCTGAAATTG+CGG - contig65end:8395-8414 MsG0080049079.01.T01:CDS 40.0%
TTCAGAATCTCCCTGTCGAA+TGG + contig65end:8391-8410 None:intergenic 45.0%
!! TCAAGTACGGTTCTAAGGGA+AGG - contig65end:8331-8350 MsG0080049079.01.T01:CDS 45.0%
AAGCTATAGCCCTTACCCCT+GGG - contig65end:8454-8473 MsG0080049079.01.T01:CDS 50.0%
TTACTCACCTATTCCGACCG+CGG - contig65end:8357-8376 MsG0080049079.01.T01:CDS 50.0%
CAAGCTATAGCCCTTACCCC+TGG - contig65end:8453-8472 MsG0080049079.01.T01:CDS 55.0%
GGAGAACAGGCCATTCGACA+GGG - contig65end:8378-8397 MsG0080049079.01.T01:CDS 55.0%
AATGGCCTGTTCTCCGCGGT+CGG + contig65end:8373-8392 None:intergenic 60.0%
CGGAGAACAGGCCATTCGAC+AGG - contig65end:8377-8396 MsG0080049079.01.T01:CDS 60.0%
CTATTCCGACCGCGGAGAAC+AGG - contig65end:8365-8384 MsG0080049079.01.T01:CDS 60.0%
CTGTTCTCCGCGGTCGGAAT+AGG + contig65end:8367-8386 None:intergenic 60.0%
GTCGAATGGCCTGTTCTCCG+CGG + contig65end:8377-8396 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
contig65end gene 8315 8527 8315 ID=MsG0080049079.01;Name=MsG0080049079.01
contig65end mRNA 8315 8527 8315 ID=MsG0080049079.01.T01;Parent=MsG0080049079.01;Name=MsG0080049079.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|70
contig65end exon 8315 8527 8315 ID=MsG0080049079.01.T01:exon:11322;Parent=MsG0080049079.01.T01
contig65end CDS 8315 8527 8315 ID=MsG0080049079.01.T01:cds;Parent=MsG0080049079.01.T01
Gene Sequence

>MsG0080049079.01.T01

ATGAGTCAGGAAACTCTCAAGTACGGTTCTAAGGGAAGGAATTTACTCACCTATTCCGACCGCGGAGAACAGGCCATTCGACAGGGAGATTCTGAAATTGCGGAATCTTGGTTTGATCAAGCCGCTGAATATTGGAAACAAGCTATAGCCCTTACCCCTGGGAATTATATTGAAGCACAGAATTGGTTGAAGATCACAGGGCGTTTTGAATAA

Protein sequence

>MsG0080049079.01.T01

MSQETLKYGSKGRNLLTYSDRGEQAIRQGDSEIAESWFDQAAEYWKQAIALTPGNYIEAQNWLKITGRFE*