AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180000596.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180000596.01.T01 MTR_1g012620 77.391 345 24 2 1 291 341 685 1.52e-162 472
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180000596.01.T01 AT4G32190 41.834 349 128 6 19 295 370 715 5.57e-53 186

Find 63 sgRNAs with CRISPR-Local

Find 75 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATATAAAAGTGCTGAATTTA+AGG 0.126833 1:+8439932 MsG0180000596.01.T01:CDS
ATTGATGTCTTCATTCTTAA+TGG 0.150281 1:-8440303 None:intergenic
CTTGAAGCGAAGCCATTTCT+TGG 0.183967 1:-8439900 None:intergenic
TTGTATTATTCAACTTATTT+TGG 0.204495 1:-8440211 None:intergenic
TTTCGTTCTCCACTTCTATT+TGG 0.209735 1:-8439750 None:intergenic
GAAGAAAGAAAGAGCTTCTT+TGG 0.211625 1:+8439867 MsG0180000596.01.T01:CDS
ATCAATACCACTAAATGAAT+TGG 0.277257 1:+8440328 MsG0180000596.01.T01:CDS
ATCTTTCTCCCTTAACATAT+TGG 0.298583 1:-8440171 None:intergenic
TTCGTTCTCCACTTCTATTT+GGG 0.342748 1:-8439749 None:intergenic
TTTCGGCCTCGAAAGCCTTC+AGG 0.344280 1:-8440235 None:intergenic
TGATCACCCAATTCATTTAG+TGG 0.352770 1:-8440335 None:intergenic
TTGAAGCAACCAATATGTTA+AGG 0.356086 1:+8440162 MsG0180000596.01.T01:CDS
TCTTAAGATCAGAGATTTCC+TGG 0.358030 1:-8440109 None:intergenic
AACTCGTTCAACCACAGTTT+CGG 0.374671 1:-8440252 None:intergenic
GGCTTCTCTTCAGTCTCTCT+TGG 0.398610 1:+8440034 MsG0180000596.01.T01:CDS
TCAATTAATGATGCCACTTT+CGG 0.401307 1:+8440355 MsG0180000596.01.T01:CDS
TGAAGCAACCAATATGTTAA+GGG 0.412520 1:+8440163 MsG0180000596.01.T01:CDS
GAGAATCGGCGAGAAAACTA+TGG 0.417613 1:+8440623 MsG0180000596.01.T01:CDS
ACAACATGACACTTTCCCTT+TGG 0.422560 1:-8439705 None:intergenic
GGAGCAGGCTGTCCAAGAAA+TGG 0.430948 1:+8439888 MsG0180000596.01.T01:CDS
TTTGAATAAAGAACTCGAAC+AGG 0.433509 1:+8439798 MsG0180000596.01.T01:CDS
TTCTCTTCAGTCTCTCTTGG+AGG 0.443922 1:+8440037 MsG0180000596.01.T01:CDS
GGAGCTTATGAAGAAGTTAC+AGG 0.444266 1:+8439837 MsG0180000596.01.T01:CDS
TGCCAACTCAATTCACTAGT+AGG 0.444901 1:-8440383 None:intergenic
TGATATTTGTGATTAAATTG+AGG 0.464943 1:-8440826 None:intergenic
TCAATACCACTAAATGAATT+GGG 0.468024 1:+8440329 MsG0180000596.01.T01:CDS
CGAGAAAACTATGGATGACT+TGG 0.468169 1:+8440632 MsG0180000596.01.T01:CDS
CCAGGAATTGAAAACTGAAA+AGG 0.470099 1:+8440013 MsG0180000596.01.T01:intron
GCAAGTACAAGAAGGGTTGT+TGG 0.471519 1:+8439657 MsG0180000596.01.T01:CDS
AGAAAGAGCTTCTTTGGAGC+AGG 0.472671 1:+8439873 MsG0180000596.01.T01:CDS
AGAACGAAAGAACAAAACTT+AGG 0.479483 1:+8439764 MsG0180000596.01.T01:CDS
AGGGTTGTTGGAACAGCAGC+TGG 0.480838 1:+8439669 MsG0180000596.01.T01:CDS
GGCTGAACTTGCAGACCAAA+GGG 0.481085 1:+8439690 MsG0180000596.01.T01:CDS
TACAAGCCTGAAGGCTTTCG+AGG 0.490119 1:+8440229 MsG0180000596.01.T01:CDS
TACAAAATGCAAGTACAAGA+AGG 0.505025 1:+8439649 None:intergenic
GCTATGACGCAGGAGAGAAT+CGG 0.519440 1:+8440609 MsG0180000596.01.T01:intron
GAACGAAAGAACAAAACTTA+GGG 0.519943 1:+8439765 MsG0180000596.01.T01:CDS
AAACTTGAAAACAAAGGAGA+TGG 0.522636 1:+8440445 MsG0180000596.01.T01:CDS
CTAGTAGGGTCCTCCGAAAG+TGG 0.529235 1:-8440368 None:intergenic
TGGCTGAACTTGCAGACCAA+AGG 0.536581 1:+8439689 MsG0180000596.01.T01:CDS
ACAGGATTTGTCCGTAGAGA+AGG 0.537064 1:+8439816 MsG0180000596.01.T01:CDS
ACTTGGAACTTTCAAGTGCT+AGG 0.537214 1:+8440066 MsG0180000596.01.T01:CDS
CTTCATAAGCTCCTTCTCTA+CGG 0.541192 1:-8439827 None:intergenic
AATTGAGAAGCTTCAGCTTG+AGG 0.546672 1:+8440656 MsG0180000596.01.T01:CDS
GGAAAGTGTCATGTTGTACA+TGG 0.547682 1:+8439711 MsG0180000596.01.T01:CDS
GCCAACTCAATTCACTAGTA+GGG 0.553485 1:-8440382 None:intergenic
ACCCTACTAGTGAATTGAGT+TGG 0.555028 1:+8440381 MsG0180000596.01.T01:CDS
TTCAAGTGCTAGGAAGATGC+TGG 0.563574 1:+8440076 MsG0180000596.01.T01:CDS
TATAGCATCAGCTTCACGCT+CGG 0.569129 1:-8440766 None:intergenic
GAAAGATGCCCAAATAGAAG+TGG 0.571824 1:+8439741 MsG0180000596.01.T01:CDS
TCTCTTGGAGGAGAAAGACT+TGG 0.581096 1:+8440049 MsG0180000596.01.T01:CDS
CATCAGCTTCACGCTCGGCA+TGG 0.582108 1:-8440761 None:intergenic
GGCTTTCGAGGCCGAAACTG+TGG 0.587517 1:+8440241 MsG0180000596.01.T01:CDS
AGAAATGGCTTCGCTTCAAG+AGG 0.591969 1:+8439903 MsG0180000596.01.T01:CDS
ACAAAATGCAAGTACAAGAA+GGG 0.599552 1:+8439650 None:intergenic
GTTGAATAATACAAGCCTGA+AGG 0.600888 1:+8440220 MsG0180000596.01.T01:CDS
ATTAATGATGCCACTTTCGG+AGG 0.601136 1:+8440358 MsG0180000596.01.T01:CDS
CAAGGAAAACTTGAAAACAA+AGG 0.617778 1:+8440439 MsG0180000596.01.T01:CDS
GATGCTGGTGGAACTAAACC+AGG 0.625978 1:+8440091 MsG0180000596.01.T01:CDS
GGAGAAAGATGACCATGTGA+AGG 0.626967 1:+8440184 MsG0180000596.01.T01:CDS
AAGTGCTAGGAAGATGCTGG+TGG 0.655984 1:+8440079 MsG0180000596.01.T01:CDS
GCTTATGAAGAAGTTACAGG+AGG 0.689307 1:+8439840 MsG0180000596.01.T01:CDS
GAATGTGCTTGAGTTGACCA+AGG 0.746422 1:+8440421 MsG0180000596.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTGTATTATTCAACTTATTT+TGG - Chr1:8440214-8440233 None:intergenic 15.0%
!!! ATATAAAAGTGCTGAATTTA+AGG + Chr1:8439932-8439951 MsG0180000596.01.T01:CDS 20.0%
! ATCAATACCACTAAATGAAT+TGG + Chr1:8440328-8440347 MsG0180000596.01.T01:CDS 25.0%
! ATTGATGTCTTCATTCTTAA+TGG - Chr1:8440306-8440325 None:intergenic 25.0%
! TCAATACCACTAAATGAATT+GGG + Chr1:8440329-8440348 MsG0180000596.01.T01:CDS 25.0%
AAACTTGAAAACAAAGGAGA+TGG + Chr1:8440445-8440464 MsG0180000596.01.T01:CDS 30.0%
AGAACGAAAGAACAAAACTT+AGG + Chr1:8439764-8439783 MsG0180000596.01.T01:CDS 30.0%
ATCTTTCTCCCTTAACATAT+TGG - Chr1:8440174-8440193 None:intergenic 30.0%
CAAGGAAAACTTGAAAACAA+AGG + Chr1:8440439-8440458 MsG0180000596.01.T01:CDS 30.0%
GAACGAAAGAACAAAACTTA+GGG + Chr1:8439765-8439784 MsG0180000596.01.T01:CDS 30.0%
TAAAATGACTCTTGCAAGAT+TGG + Chr1:8440513-8440532 MsG0180000596.01.T01:intron 30.0%
TGAAGCAACCAATATGTTAA+GGG + Chr1:8440163-8440182 MsG0180000596.01.T01:CDS 30.0%
TTGAAGCAACCAATATGTTA+AGG + Chr1:8440162-8440181 MsG0180000596.01.T01:CDS 30.0%
TTTGAATAAAGAACTCGAAC+AGG + Chr1:8439798-8439817 MsG0180000596.01.T01:CDS 30.0%
!! AATTGAGTTGGCAACAAAAA+CGG + Chr1:8440393-8440412 MsG0180000596.01.T01:CDS 30.0%
!! TATTTTGGATTACCTTCACA+TGG - Chr1:8440199-8440218 None:intergenic 30.0%
!! TCAATTAATGATGCCACTTT+CGG + Chr1:8440355-8440374 MsG0180000596.01.T01:CDS 30.0%
!!! CTTTGTTTTCAAGTTTTCCT+TGG - Chr1:8440441-8440460 None:intergenic 30.0%
CCAGGAATTGAAAACTGAAA+AGG + Chr1:8440013-8440032 MsG0180000596.01.T01:intron 35.0%
GAAGAAAGAAAGAGCTTCTT+TGG + Chr1:8439867-8439886 MsG0180000596.01.T01:CDS 35.0%
GTTGAATAATACAAGCCTGA+AGG + Chr1:8440220-8440239 MsG0180000596.01.T01:CDS 35.0%
TCTTAAGATCAGAGATTTCC+TGG - Chr1:8440112-8440131 None:intergenic 35.0%
TGACTCTTTGACATCAAGAA+GGG - Chr1:8439967-8439986 None:intergenic 35.0%
TGATCACCCAATTCATTTAG+TGG - Chr1:8440338-8440357 None:intergenic 35.0%
TTCGTTCTCCACTTCTATTT+GGG - Chr1:8439752-8439771 None:intergenic 35.0%
TTTCGTTCTCCACTTCTATT+TGG - Chr1:8439753-8439772 None:intergenic 35.0%
! CCTTTTCAGTTTTCAATTCC+TGG - Chr1:8440016-8440035 None:intergenic 35.0%
! GAGCTCTAACAAAAAAGATG+AGG + Chr1:8440486-8440505 MsG0180000596.01.T01:intron 35.0%
! GAGTCAACAACTTTTGAACA+AGG + Chr1:8440738-8440757 MsG0180000596.01.T01:CDS 35.0%
AAATGTGTATGCTATGACGC+AGG + Chr1:8440599-8440618 MsG0180000596.01.T01:intron 40.0%
AACTCGTTCAACCACAGTTT+CGG - Chr1:8440255-8440274 None:intergenic 40.0%
AATTGAGAAGCTTCAGCTTG+AGG + Chr1:8440656-8440675 MsG0180000596.01.T01:CDS 40.0%
ACAACATGACACTTTCCCTT+TGG - Chr1:8439708-8439727 None:intergenic 40.0%
ACCCTACTAGTGAATTGAGT+TGG + Chr1:8440381-8440400 MsG0180000596.01.T01:CDS 40.0%
CGAGAAAACTATGGATGACT+TGG + Chr1:8440632-8440651 MsG0180000596.01.T01:CDS 40.0%
CTGACTCTTTGACATCAAGA+AGG - Chr1:8439968-8439987 None:intergenic 40.0%
CTTCATAAGCTCCTTCTCTA+CGG - Chr1:8439830-8439849 None:intergenic 40.0%
GAAAGATGCCCAAATAGAAG+TGG + Chr1:8439741-8439760 MsG0180000596.01.T01:CDS 40.0%
GCCAACTCAATTCACTAGTA+GGG - Chr1:8440385-8440404 None:intergenic 40.0%
GCTTATGAAGAAGTTACAGG+AGG + Chr1:8439840-8439859 MsG0180000596.01.T01:CDS 40.0%
GGAAGAGTTGAGAAAAGCAA+AGG + Chr1:8440546-8440565 MsG0180000596.01.T01:intron 40.0%
GGAGCTTATGAAGAAGTTAC+AGG + Chr1:8439837-8439856 MsG0180000596.01.T01:CDS 40.0%
GTTGAGAAAAGCAAAGGACA+TGG + Chr1:8440552-8440571 MsG0180000596.01.T01:intron 40.0%
TGATGCTAAGCTACAAATCC+AGG + Chr1:8439995-8440014 MsG0180000596.01.T01:intron 40.0%
TGCAAGATTGGATGCAAAAG+AGG + Chr1:8440525-8440544 MsG0180000596.01.T01:intron 40.0%
TGCCAACTCAATTCACTAGT+AGG - Chr1:8440386-8440405 None:intergenic 40.0%
! ACTTGGAACTTTCAAGTGCT+AGG + Chr1:8440066-8440085 MsG0180000596.01.T01:CDS 40.0%
!! ATTAATGATGCCACTTTCGG+AGG + Chr1:8440358-8440377 MsG0180000596.01.T01:CDS 40.0%
!! GGAAAGTGTCATGTTGTACA+TGG + Chr1:8439711-8439730 MsG0180000596.01.T01:CDS 40.0%
ACAGGATTTGTCCGTAGAGA+AGG + Chr1:8439816-8439835 MsG0180000596.01.T01:CDS 45.0%
AGAAATGGCTTCGCTTCAAG+AGG + Chr1:8439903-8439922 MsG0180000596.01.T01:CDS 45.0%
CTTGAAGCGAAGCCATTTCT+TGG - Chr1:8439903-8439922 None:intergenic 45.0%
GAGAATCGGCGAGAAAACTA+TGG + Chr1:8440623-8440642 MsG0180000596.01.T01:CDS 45.0%
GCAAGTACAAGAAGGGTTGT+TGG + Chr1:8439657-8439676 MsG0180000596.01.T01:CDS 45.0%
GGAGAAAGATGACCATGTGA+AGG + Chr1:8440184-8440203 MsG0180000596.01.T01:CDS 45.0%
TATAGCATCAGCTTCACGCT+CGG - Chr1:8440769-8440788 None:intergenic 45.0%
TCTCTTGGAGGAGAAAGACT+TGG + Chr1:8440049-8440068 MsG0180000596.01.T01:CDS 45.0%
TTCAAGTGCTAGGAAGATGC+TGG + Chr1:8440076-8440095 MsG0180000596.01.T01:CDS 45.0%
TTCTCTTCAGTCTCTCTTGG+AGG + Chr1:8440037-8440056 MsG0180000596.01.T01:CDS 45.0%
!! AGAAAGAGCTTCTTTGGAGC+AGG + Chr1:8439873-8439892 MsG0180000596.01.T01:CDS 45.0%
!! GAATGTGCTTGAGTTGACCA+AGG + Chr1:8440421-8440440 MsG0180000596.01.T01:CDS 45.0%
AAGTGCTAGGAAGATGCTGG+TGG + Chr1:8440079-8440098 MsG0180000596.01.T01:CDS 50.0%
GAGTTGGCAACAAAAACGGC+TGG + Chr1:8440397-8440416 MsG0180000596.01.T01:CDS 50.0%
GATGCTGGTGGAACTAAACC+AGG + Chr1:8440091-8440110 MsG0180000596.01.T01:CDS 50.0%
GCTATGACGCAGGAGAGAAT+CGG + Chr1:8440609-8440628 MsG0180000596.01.T01:intron 50.0%
GGCTGAACTTGCAGACCAAA+GGG + Chr1:8439690-8439709 MsG0180000596.01.T01:CDS 50.0%
GGCTTCTCTTCAGTCTCTCT+TGG + Chr1:8440034-8440053 MsG0180000596.01.T01:CDS 50.0%
TACAAGCCTGAAGGCTTTCG+AGG + Chr1:8440229-8440248 MsG0180000596.01.T01:CDS 50.0%
TGGCTGAACTTGCAGACCAA+AGG + Chr1:8439689-8439708 MsG0180000596.01.T01:CDS 50.0%
AGGGTTGTTGGAACAGCAGC+TGG + Chr1:8439669-8439688 MsG0180000596.01.T01:CDS 55.0%
CTAGTAGGGTCCTCCGAAAG+TGG - Chr1:8440371-8440390 None:intergenic 55.0%
GGAGCAGGCTGTCCAAGAAA+TGG + Chr1:8439888-8439907 MsG0180000596.01.T01:CDS 55.0%
TTTCGGCCTCGAAAGCCTTC+AGG - Chr1:8440238-8440257 None:intergenic 55.0%
CATCAGCTTCACGCTCGGCA+TGG - Chr1:8440764-8440783 None:intergenic 60.0%
GGCTTTCGAGGCCGAAACTG+TGG + Chr1:8440241-8440260 MsG0180000596.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr1 gene 8439655 8440836 8439655 ID=MsG0180000596.01;Name=MsG0180000596.01
Chr1 mRNA 8439655 8440836 8439655 ID=MsG0180000596.01.T01;Parent=MsG0180000596.01;Name=MsG0180000596.01.T01;_AED=0.49;_eAED=0.54;_QI=0|0|0|1|1|1|3|0|324
Chr1 exon 8439655 8439960 8439655 ID=MsG0180000596.01.T01:exon:2470;Parent=MsG0180000596.01.T01
Chr1 exon 8440017 8440469 8440017 ID=MsG0180000596.01.T01:exon:2469;Parent=MsG0180000596.01.T01
Chr1 exon 8440621 8440836 8440621 ID=MsG0180000596.01.T01:exon:2468;Parent=MsG0180000596.01.T01
Chr1 CDS 8439655 8439960 8439655 ID=MsG0180000596.01.T01:cds;Parent=MsG0180000596.01.T01
Chr1 CDS 8440017 8440469 8440017 ID=MsG0180000596.01.T01:cds;Parent=MsG0180000596.01.T01
Chr1 CDS 8440621 8440836 8440621 ID=MsG0180000596.01.T01:cds;Parent=MsG0180000596.01.T01
Gene Sequence

>MsG0180000596.01.T01

ATGCAAGTACAAGAAGGGTTGTTGGAACAGCAGCTGGCTGAACTTGCAGACCAAAGGGAAAGTGTCATGTTGTACATGGAAAATTTGAAAGATGCCCAAATAGAAGTGGAGAACGAAAGAACAAAACTTAGGGTCGCAGAAGCTTTGAATAAAGAACTCGAACAGGATTTGTCCGTAGAGAAGGAGCTTATGAAGAAGTTACAGGAGGAGCTGAAGAAAGAAAGAGCTTCTTTGGAGCAGGCTGTCCAAGAAATGGCTTCGCTTCAAGAGGAATTAGATATAAAAGTGCTGAATTTAAGGAAAAAAGAATTGAAAACTGAAAAGGCTTCTCTTCAGTCTCTCTTGGAGGAGAAAGACTTGGAACTTTCAAGTGCTAGGAAGATGCTGGTGGAACTAAACCAGGAAATCTCTGATCTTAAGATGCTTATGAATGATAAAGAAACACAGCTTATTGAAGCAACCAATATGTTAAGGGAGAAAGATGACCATGTGAAGGTAATCCAAAATAAGTTGAATAATACAAGCCTGAAGGCTTTCGAGGCCGAAACTGTGGTTGAACGAGTTTTAGATCTCACAAACAAACTTGTTGCTTCCATTAAGAATGAAGACATCAATTCATCAATACCACTAAATGAATTGGGTGATCAATTAATGATGCCACTTTCGGAGGACCCTACTAGTGAATTGAGTTGGCAACAAAAACGGCTGGAGAATGTGCTTGAGTTGACCAAGGAAAACTTGAAAACAAAGGAGATGGAAGAGAGAATCGGCGAGAAAACTATGGATGACTTGGCAATTGAGAAGCTTCAGCTTGAGGCAGCTCAGCTTGAAGATGAAGTTGAAGCTGCAACTAGCACTCTACAGAAACTTGCAAATGAGTCAACAACTTTTGAACAAGGCCATGCCGAGCGTGAAGCTGATGCTATAGCTATATCAGTCTCATGCAAAACAACAATGATATTAACCTCAATTTAA
Protein sequence

>MsG0180000596.01.T01

MQVQEGLLEQQLAELADQRESVMLYMENLKDAQIEVENERTKLRVAEALNKELEQDLSVEKELMKKLQEELKKERASLEQAVQEMASLQEELDIKVLNLRKKELKTEKASLQSLLEEKDLELSSARKMLVELNQEISDLKMLMNDKETQLIEATNMLREKDDHVKVIQNKLNNTSLKAFEAETVVERVLDLTNKLVASIKNEDINSSIPLNELGDQLMMPLSEDPTSELSWQQKRLENVLELTKENLKTKEMEERIGEKTMDDLAIEKLQLEAAQLEDEVEAATSTLQKLANESTTFEQGHAEREADAIAISVSCKTTMILTSI*