AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380014729.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380014729.01.T01 MTR_3g462990 95.789 95 4 0 1 95 1 95 1.27e-54 164
MsG0380014729.01.T01 MTR_5g069990 59.016 61 13 1 32 80 32 92 5.42e-17 70.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380014729.01.T01 AT3G47070 53.125 64 26 2 1 64 2 61 3.66e-15 65.5

Find 26 sgRNAs with CRISPR-Local

Find 32 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAACCTTTCTCTTCTTTGA+TGG 0.323913 3:+58944612 None:intergenic
ACTCTAGTTCTAGTAGTTGT+TGG 0.362442 3:+58944673 None:intergenic
AACTACTAGAACTAGAGTTT+TGG 0.374057 3:-58944668 MsG0380014729.01.T01:CDS
AAGAAGAAGGGTGGTGGCCT+TGG 0.398087 3:-58944454 MsG0380014729.01.T01:CDS
AAATTAATTGCTTCTTCACT+TGG 0.418622 3:+58944420 None:intergenic
AAGAAGGGTGGTGGCCTTGG+TGG 0.460503 3:-58944451 MsG0380014729.01.T01:CDS
AAACCTTTCTCTTCTTTGAT+GGG 0.467886 3:+58944613 None:intergenic
TTTGGCACCTACTGCAACAA+AGG 0.492740 3:-58944650 MsG0380014729.01.T01:CDS
TCTTCTCCTCCACCTTCTTG+AGG 0.493428 3:+58944530 None:intergenic
GTAGTACCCTTTGTTGCAGT+AGG 0.498784 3:+58944643 None:intergenic
TTTCTGGATTGGATTCTTGG+AGG 0.519713 3:-58944592 MsG0380014729.01.T01:CDS
TCCTCCACCTTCTTGAGGAT+AGG 0.540729 3:+58944535 None:intergenic
TTGGCACCTACTGCAACAAA+GGG 0.544612 3:-58944649 MsG0380014729.01.T01:CDS
TGTGCCACCACAAAAGAAGA+AGG 0.556607 3:-58944467 MsG0380014729.01.T01:CDS
GCACCCATCAAAGAAGAGAA+AGG 0.573189 3:-58944616 MsG0380014729.01.T01:CDS
TCCTATCCTCAAGAAGGTGG+AGG 0.573241 3:-58944536 MsG0380014729.01.T01:CDS
AAGAAGGTGGAGGAGAAGAG+TGG 0.587987 3:-58944526 MsG0380014729.01.T01:CDS
CCACAAAAGAAGAAGGGTGG+TGG 0.594602 3:-58944460 MsG0380014729.01.T01:CDS
GACTGATCCTATCCTCAAGA+AGG 0.605338 3:-58944542 MsG0380014729.01.T01:CDS
TGATCCTATCCTCAAGAAGG+TGG 0.622788 3:-58944539 MsG0380014729.01.T01:CDS
AAGGTGGAGGAGAAGAGTGG+AGG 0.646817 3:-58944523 MsG0380014729.01.T01:CDS
GTGCCACCACAAAAGAAGAA+GGG 0.667239 3:-58944466 MsG0380014729.01.T01:CDS
ACTTGGCAAACAAGCCACCA+AGG 0.670213 3:+58944437 None:intergenic
AGTGGAGGAACAGCTAGCAA+CGG 0.678566 3:-58944508 MsG0380014729.01.T01:CDS
CCACCACAAAAGAAGAAGGG+TGG 0.703756 3:-58944463 MsG0380014729.01.T01:CDS
CAACGGTCGCAAGAACACCG+TGG 0.775728 3:-58944491 MsG0380014729.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAAACCTTTCTCTTCTTTGA+TGG + Chr3:58944526-58944545 None:intergenic 30.0%
AAACCTTTCTCTTCTTTGAT+GGG + Chr3:58944525-58944544 None:intergenic 30.0%
! AACTACTAGAACTAGAGTTT+TGG - Chr3:58944467-58944486 MsG0380014729.01.T01:CDS 30.0%
TAGGATCAGTCTCAAAAAAC+TGG + Chr3:58944584-58944603 None:intergenic 35.0%
! AAGAGAAAGGTTTTCTGGAT+TGG - Chr3:58944532-58944551 MsG0380014729.01.T01:CDS 35.0%
! CAAAGAAGAGAAAGGTTTTC+TGG - Chr3:58944527-58944546 MsG0380014729.01.T01:CDS 35.0%
!! ACTCTAGTTCTAGTAGTTGT+TGG + Chr3:58944465-58944484 None:intergenic 35.0%
! TTTCTGGATTGGATTCTTGG+AGG - Chr3:58944543-58944562 MsG0380014729.01.T01:CDS 40.0%
!! GGTTTTCTGGATTGGATTCT+TGG - Chr3:58944540-58944559 MsG0380014729.01.T01:CDS 40.0%
GACTGATCCTATCCTCAAGA+AGG - Chr3:58944593-58944612 MsG0380014729.01.T01:CDS 45.0%
GCACCCATCAAAGAAGAGAA+AGG - Chr3:58944519-58944538 MsG0380014729.01.T01:CDS 45.0%
GTAGTACCCTTTGTTGCAGT+AGG + Chr3:58944495-58944514 None:intergenic 45.0%
GTGCCACCACAAAAGAAGAA+GGG - Chr3:58944669-58944688 MsG0380014729.01.T01:CDS 45.0%
TGATCCTATCCTCAAGAAGG+TGG - Chr3:58944596-58944615 MsG0380014729.01.T01:CDS 45.0%
TGTGCCACCACAAAAGAAGA+AGG - Chr3:58944668-58944687 MsG0380014729.01.T01:CDS 45.0%
TTGGCACCTACTGCAACAAA+GGG - Chr3:58944486-58944505 MsG0380014729.01.T01:CDS 45.0%
TTTGGCACCTACTGCAACAA+AGG - Chr3:58944485-58944504 MsG0380014729.01.T01:CDS 45.0%
AAGAAGGTGGAGGAGAAGAG+TGG - Chr3:58944609-58944628 MsG0380014729.01.T01:CDS 50.0%
ACTTGGCAAACAAGCCACCA+AGG + Chr3:58944701-58944720 None:intergenic 50.0%
AGTGGAGGAACAGCTAGCAA+CGG - Chr3:58944627-58944646 MsG0380014729.01.T01:CDS 50.0%
CCACAAAAGAAGAAGGGTGG+TGG - Chr3:58944675-58944694 MsG0380014729.01.T01:CDS 50.0%
CCACCACAAAAGAAGAAGGG+TGG - Chr3:58944672-58944691 MsG0380014729.01.T01:CDS 50.0%
TCCTATCCTCAAGAAGGTGG+AGG - Chr3:58944599-58944618 MsG0380014729.01.T01:CDS 50.0%
TCCTCCACCTTCTTGAGGAT+AGG + Chr3:58944603-58944622 None:intergenic 50.0%
TCTTCTCCTCCACCTTCTTG+AGG + Chr3:58944608-58944627 None:intergenic 50.0%
! CCACCACCCTTCTTCTTTTG+TGG + Chr3:58944678-58944697 None:intergenic 50.0%
! CCACCCTTCTTCTTTTGTGG+TGG + Chr3:58944675-58944694 None:intergenic 50.0%
! CTTTTGTGGTGGCACAACCA+CGG + Chr3:58944664-58944683 None:intergenic 50.0%
AAGGTGGAGGAGAAGAGTGG+AGG - Chr3:58944612-58944631 MsG0380014729.01.T01:CDS 55.0%
! AAGAAGAAGGGTGGTGGCCT+TGG - Chr3:58944681-58944700 MsG0380014729.01.T01:CDS 55.0%
CAACGGTCGCAAGAACACCG+TGG - Chr3:58944644-58944663 MsG0380014729.01.T01:CDS 60.0%
! AAGAAGGGTGGTGGCCTTGG+TGG - Chr3:58944684-58944703 MsG0380014729.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr3 gene 58944435 58944722 58944435 ID=MsG0380014729.01;Name=MsG0380014729.01
Chr3 mRNA 58944435 58944722 58944435 ID=MsG0380014729.01.T01;Parent=MsG0380014729.01;Name=MsG0380014729.01.T01;_AED=0.42;_eAED=0.42;_QI=0|-1|0|1|-1|1|1|0|95
Chr3 exon 58944435 58944722 58944435 ID=MsG0380014729.01.T01:exon:11435;Parent=MsG0380014729.01.T01
Chr3 CDS 58944435 58944722 58944435 ID=MsG0380014729.01.T01:cds;Parent=MsG0380014729.01.T01
Gene Sequence

>MsG0380014729.01.T01

ATGACTTCATTGTTCATGTCATTTACTCCAACAACTACTAGAACTAGAGTTTTGGCACCTACTGCAACAAAGGGTACTACAAGTGCACCCATCAAAGAAGAGAAAGGTTTTCTGGATTGGATTCTTGGAGGAATGCAGAAAGAAGACCAGTTTTTTGAGACTGATCCTATCCTCAAGAAGGTGGAGGAGAAGAGTGGAGGAACAGCTAGCAACGGTCGCAAGAACACCGTGGTTGTGCCACCACAAAAGAAGAAGGGTGGTGGCCTTGGTGGCTTGTTTGCCAAGTGA

Protein sequence

>MsG0380014729.01.T01

MTSLFMSFTPTTTRTRVLAPTATKGTTSAPIKEEKGFLDWILGGMQKEDQFFETDPILKKVEEKSGGTASNGRKNTVVVPPQKKKGGGLGGLFAK*