AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180002082.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180002082.01.T01 MTR_1g037260 52.518 139 25 3 14 112 410 547 2.90e-25 99.0
MsG0180002082.01.T01 MTR_1g036680 56.471 85 36 1 28 112 12 95 2.78e-24 89.0
MsG0180002082.01.T01 MTR_1g037080 59.701 67 26 1 46 112 198 263 1.51e-18 78.2
MsG0180002082.01.T01 MTR_4g076540 38.961 77 46 1 28 104 730 805 2.56e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 21 sgRNAs with CRISPR-Local

Find 27 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAATGCTGACAAGTATTTA+AGG 0.159059 1:-32406357 MsG0180002082.01.T01:CDS
TTGACTGTGTTGTTAGATAA+AGG 0.327261 1:-32406550 MsG0180002082.01.T01:CDS
TCACAATGAATTGGCCTCAT+TGG 0.342113 1:-32406233 MsG0180002082.01.T01:CDS
TCTTCAGCTTCACAATGAAT+TGG 0.380128 1:-32406242 MsG0180002082.01.T01:CDS
GACTATGAAAGGTCGATTGC+TGG 0.402524 1:-32406335 MsG0180002082.01.T01:CDS
GTCTCATATATACTCACATT+TGG 0.407056 1:+32406310 None:intergenic
TTTCGTCATTTCCCTTCTGC+AGG 0.419489 1:+32406269 None:intergenic
TGACTGTGTTGTTAGATAAA+GGG 0.467170 1:-32406549 MsG0180002082.01.T01:CDS
GATATAGAGAATGTTGGAAA+AGG 0.470378 1:-32406647 None:intergenic
GAGAATGTTGGAAAAGGAAG+AGG 0.471068 1:-32406641 None:intergenic
ACTTATTCTCATTTGATACA+TGG 0.474528 1:-32406508 MsG0180002082.01.T01:CDS
TACATTGTTAATTTGTGAGA+AGG 0.476289 1:-32406584 MsG0180002082.01.T01:CDS
TATGAGACGTTGTTGATCGC+TGG 0.547504 1:-32406295 MsG0180002082.01.T01:CDS
GATCGCTGGTCACCTGCAGA+AGG 0.557140 1:-32406281 MsG0180002082.01.T01:CDS
GCAGAAGGGAAATGACGAAA+GGG 0.558125 1:-32406266 MsG0180002082.01.T01:CDS
TGCAGAAGGGAAATGACGAA+AGG 0.590447 1:-32406267 MsG0180002082.01.T01:CDS
TGAGAATAAGTAACATCACT+CGG 0.615983 1:+32406520 None:intergenic
AAGTATTTAAGGACTATGAA+AGG 0.617133 1:-32406346 MsG0180002082.01.T01:CDS
ATCGCTGGTCACCTGCAGAA+GGG 0.634756 1:-32406280 MsG0180002082.01.T01:CDS
ACTATGTTGCAACTCCAATG+AGG 0.668614 1:+32406219 None:intergenic
TGGCTATGTGAGAAATGTCG+AGG 0.671412 1:-32406488 MsG0180002082.01.T01:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TCTGAAGATATATTATGAAA+TGG - Chr1:32406398-32406417 MsG0180002082.01.T01:intron 20.0%
! AAAATGCTGACAAGTATTTA+AGG - Chr1:32406496-32406515 MsG0180002082.01.T01:CDS 25.0%
! AAGTATTTAAGGACTATGAA+AGG - Chr1:32406507-32406526 MsG0180002082.01.T01:CDS 25.0%
! ACTTATTCTCATTTGATACA+TGG - Chr1:32406345-32406364 MsG0180002082.01.T01:CDS 25.0%
!!! TACATTGTTAATTTGTGAGA+AGG - Chr1:32406269-32406288 MsG0180002082.01.T01:CDS 25.0%
GACTAATAAACAGACAAACT+AGG + Chr1:32406441-32406460 None:intergenic 30.0%
GTCTCATATATACTCACATT+TGG + Chr1:32406546-32406565 None:intergenic 30.0%
TGAGAATAAGTAACATCACT+CGG + Chr1:32406336-32406355 None:intergenic 30.0%
! CATTTTCAACCTTTCCAAAA+CGG + Chr1:32406482-32406501 None:intergenic 30.0%
! TGACTGTGTTGTTAGATAAA+GGG - Chr1:32406304-32406323 MsG0180002082.01.T01:CDS 30.0%
! TTGACTGTGTTGTTAGATAA+AGG - Chr1:32406303-32406322 MsG0180002082.01.T01:CDS 30.0%
TCTTCAGCTTCACAATGAAT+TGG - Chr1:32406611-32406630 MsG0180002082.01.T01:CDS 35.0%
ACTATGTTGCAACTCCAATG+AGG + Chr1:32406637-32406656 None:intergenic 40.0%
GAAGAGGAAAAAGACGATGA+AGG - Chr1:32406228-32406247 MsG0180002082.01.T01:CDS 40.0%
! TCACAATGAATTGGCCTCAT+TGG - Chr1:32406620-32406639 MsG0180002082.01.T01:CDS 40.0%
!!! ATTCAGTGTTTGTGCCGTTT+TGG - Chr1:32406465-32406484 MsG0180002082.01.T01:intron 40.0%
GACTATGAAAGGTCGATTGC+TGG - Chr1:32406518-32406537 MsG0180002082.01.T01:CDS 45.0%
GCAGAAGGGAAATGACGAAA+GGG - Chr1:32406587-32406606 MsG0180002082.01.T01:CDS 45.0%
GTGAGAAATGTCGAGGTTCA+GGG - Chr1:32406372-32406391 MsG0180002082.01.T01:intron 45.0%
TATGAGACGTTGTTGATCGC+TGG - Chr1:32406558-32406577 MsG0180002082.01.T01:CDS 45.0%
TGCAGAAGGGAAATGACGAA+AGG - Chr1:32406586-32406605 MsG0180002082.01.T01:CDS 45.0%
TGGCTATGTGAGAAATGTCG+AGG - Chr1:32406365-32406384 MsG0180002082.01.T01:intron 45.0%
TGTGAGAAATGTCGAGGTTC+AGG - Chr1:32406371-32406390 MsG0180002082.01.T01:intron 45.0%
TTTCGTCATTTCCCTTCTGC+AGG + Chr1:32406587-32406606 None:intergenic 45.0%
!!! GTGTTTGTGCCGTTTTGGAA+AGG - Chr1:32406470-32406489 MsG0180002082.01.T01:intron 45.0%
ATCGCTGGTCACCTGCAGAA+GGG - Chr1:32406573-32406592 MsG0180002082.01.T01:CDS 55.0%
GATCGCTGGTCACCTGCAGA+AGG - Chr1:32406572-32406591 MsG0180002082.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr1 gene 32406216 32406659 32406216 ID=MsG0180002082.01;Name=MsG0180002082.01
Chr1 mRNA 32406216 32406659 32406216 ID=MsG0180002082.01.T01;Parent=MsG0180002082.01;Name=MsG0180002082.01.T01;_AED=0.40;_eAED=0.47;_QI=0|0|0|1|1|1|2|0|112
Chr1 exon 32406489 32406659 32406489 ID=MsG0180002082.01.T01:exon:7132;Parent=MsG0180002082.01.T01
Chr1 exon 32406216 32406383 32406216 ID=MsG0180002082.01.T01:exon:7133;Parent=MsG0180002082.01.T01
Chr1 CDS 32406489 32406659 32406489 ID=MsG0180002082.01.T01:cds;Parent=MsG0180002082.01.T01
Chr1 CDS 32406216 32406383 32406216 ID=MsG0180002082.01.T01:cds;Parent=MsG0180002082.01.T01
Gene Sequence

>MsG0180002082.01.T01

ATGTTGGAAAAGGAAGAGGAAAAAGACGATGAAGGTGAGTTATTTAAGTTAGTTACATTGTTAATTTGTGAGAAGGTAAATGATATGTTGACTGTGTTGTTAGATAAAGGGTTTTTGCCGAGTGATGTTACTTATTCTCATTTGATACATGGCTATGTGAGAAATGTCGAGGTTGAAAATGCTGACAAGTATTTAAGGACTATGAAAGGTCGATTGCTGGTTCCAAATGTGAGTATATATGAGACGTTGTTGATCGCTGGTCACCTGCAGAAGGGAAATGACGAAAGGGCTCTTCAGCTTCACAATGAATTGGCCTCATTGGAGTTGCAACATAGTTAG
Protein sequence

>MsG0180002082.01.T01

MLEKEEEKDDEGELFKLVTLLICEKVNDMLTVLLDKGFLPSDVTYSHLIHGYVRNVEVENADKYLRTMKGRLLVPNVSIYETLLIAGHLQKGNDERALQLHNELASLELQHS*