AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880045290.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880045290.01.T01 MTR_8g069510 87.069 116 13 1 1 114 1 116 4.35e-64 190
MsG0880045290.01.T01 MTR_5g033220 54.701 117 44 5 1 113 1 112 1.12e-29 103
MsG0880045290.01.T01 MTR_6g005250 50.862 116 48 6 1 113 1 110 6.39e-23 85.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880045290.01.T01 AT5G40460 49.573 117 45 6 1 109 1 111 2.33e-25 92.4
MsG0880045290.01.T01 AT1G10690 42.727 110 57 4 1 108 1 106 2.42e-19 77.0
MsG0880045290.01.T01 AT1G60783 41.284 109 55 4 1 107 1 102 8.58e-19 75.5

Find 15 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGAAAATAATAGTAGAAAA+TGG 0.206444 8:-56982734 MsG0880045290.01.T01:CDS
TCATTAGAATTTGTTTGTAT+TGG 0.316429 8:+56982675 None:intergenic
TTTGTTTGTATTGGCTTCAA+TGG 0.352607 8:+56982684 None:intergenic
CTCTTATAACACCACTACTA+TGG 0.381025 8:+56982520 None:intergenic
AGAAAATAATAGTAGAAAAT+GGG 0.405974 8:-56982733 MsG0880045290.01.T01:CDS
GAGAAGGCACAAGTAGTAGA+AGG 0.452990 8:-56982768 MsG0880045290.01.T01:CDS
AGTAGAAAATGGGTTATAGC+TGG 0.476913 8:-56982723 MsG0880045290.01.T01:CDS
TCACGTGTCCACCTGCTCCT+AGG 0.493676 8:-56982572 MsG0880045290.01.T01:CDS
ACAAACAAATTCTAATGAGA+AGG 0.561207 8:-56982670 MsG0880045290.01.T01:CDS
CAATATGGGGTACTCTGAGA+AGG 0.595703 8:-56982784 None:intergenic
GGTGGACACGTGAATGATGT+TGG 0.596429 8:+56982582 None:intergenic
AAGGCACAAGTAGTAGAAGG+AGG 0.615650 8:-56982765 MsG0880045290.01.T01:CDS
AGGCACAAGTAGTAGAAGGA+GGG 0.640340 8:-56982764 MsG0880045290.01.T01:CDS
AAGCGGAACTACCATAGTAG+TGG 0.649061 8:-56982531 MsG0880045290.01.T01:CDS
ATGTTCAACACCAACAAACG+AGG 0.701679 8:-56982616 MsG0880045290.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGAAAATAATAGTAGAAAAT+GGG - Chr8:56982505-56982524 MsG0880045290.01.T01:CDS 15.0%
!! CAGAAAATAATAGTAGAAAA+TGG - Chr8:56982504-56982523 MsG0880045290.01.T01:CDS 20.0%
!!! TCATTAGAATTTGTTTGTAT+TGG + Chr8:56982566-56982585 None:intergenic 20.0%
! ACAAACAAATTCTAATGAGA+AGG - Chr8:56982568-56982587 MsG0880045290.01.T01:CDS 25.0%
!! ATAAACACGTTTTCTAAATC+TGG + Chr8:56982758-56982777 None:intergenic 25.0%
! AAAGAAGATTTTTGCTTCCT+AGG + Chr8:56982686-56982705 None:intergenic 30.0%
! AGCAAAAATCTTCTTTGAAG+CGG - Chr8:56982690-56982709 MsG0880045290.01.T01:CDS 30.0%
!! ATTTTTGATTCCTCGTTTGT+TGG + Chr8:56982635-56982654 None:intergenic 30.0%
!! TTTGTTTGTATTGGCTTCAA+TGG + Chr8:56982557-56982576 None:intergenic 30.0%
CTCTTATAACACCACTACTA+TGG + Chr8:56982721-56982740 None:intergenic 35.0%
!! AGTAGAAAATGGGTTATAGC+TGG - Chr8:56982515-56982534 MsG0880045290.01.T01:CDS 35.0%
ATGTTCAACACCAACAAACG+AGG - Chr8:56982622-56982641 MsG0880045290.01.T01:CDS 40.0%
AAGCGGAACTACCATAGTAG+TGG - Chr8:56982707-56982726 MsG0880045290.01.T01:CDS 45.0%
AAGGCACAAGTAGTAGAAGG+AGG - Chr8:56982473-56982492 MsG0880045290.01.T01:CDS 45.0%
AGGCACAAGTAGTAGAAGGA+GGG - Chr8:56982474-56982493 MsG0880045290.01.T01:CDS 45.0%
! GAGAAGGCACAAGTAGTAGA+AGG - Chr8:56982470-56982489 MsG0880045290.01.T01:CDS 45.0%
! GATTTTTGCTTCCTAGGAGC+AGG + Chr8:56982680-56982699 None:intergenic 45.0%
GGTGGACACGTGAATGATGT+TGG + Chr8:56982659-56982678 None:intergenic 50.0%
! TTTTGCTTCCTAGGAGCAGG+TGG + Chr8:56982677-56982696 None:intergenic 50.0%
TCACGTGTCCACCTGCTCCT+AGG - Chr8:56982666-56982685 MsG0880045290.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr8 gene 56982458 56982802 56982458 ID=MsG0880045290.01;Name=MsG0880045290.01
Chr8 mRNA 56982458 56982802 56982458 ID=MsG0880045290.01.T01;Parent=MsG0880045290.01;Name=MsG0880045290.01.T01;_AED=0.42;_eAED=0.42;_QI=0|-1|0|1|-1|0|1|0|114
Chr8 exon 56982458 56982802 56982458 ID=MsG0880045290.01.T01:exon:24416;Parent=MsG0880045290.01.T01
Chr8 CDS 56982458 56982802 56982458 ID=MsG0880045290.01.T01:cds;Parent=MsG0880045290.01.T01
Gene Sequence

>MsG0880045290.01.T01

ATGGGGTACTCTGAGAAGGCACAAGTAGTAGAAGGAGGGTTTGAATCAGAAAATAATAGTAGAAAATGGGTTATAGCTGGAATTTCGTTACGTGCTCCATTGAAGCCAATACAAACAAATTCTAATGAGAAGGAACAACAAAAAGAAGAAGTTGAAATAGAAGAATGTTCAACACCAACAAACGAGGAATCAAAAATTCCAACATCATTCACGTGTCCACCTGCTCCTAGGAAGCAAAAATCTTCTTTGAAGCGGAACTACCATAGTAGTGGTGTTATAAGAGAGTTTTTTAAAGCACCAGATTTAGAAAACGTGTTTATACGTCATGTTGAAAATGCTAATTGA

Protein sequence

>MsG0880045290.01.T01

MGYSEKAQVVEGGFESENNSRKWVIAGISLRAPLKPIQTNSNEKEQQKEEVEIEECSTPTNEESKIPTSFTCPPAPRKQKSSLKRNYHSSGVIREFFKAPDLENVFIRHVENAN*