AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380012779.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380012779.01.T01 MTR_3g030850 92.157 102 7 1 1 102 6 106 6.74e-60 179
MsG0380012779.01.T01 MTR_3g030860 86.139 101 12 1 1 101 6 104 7.65e-48 148
MsG0380012779.01.T01 MTR_4g037505 70.874 103 27 3 1 101 6 107 9.21e-41 130
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380012779.01.T01 AT1G51400 59.048 105 36 4 1 102 6 106 1.53e-28 99.8
MsG0380012779.01.T01 AT3G21055 53.398 103 42 3 1 101 4 102 5.00e-22 83.2
MsG0380012779.01.T01 AT3G21055 53.398 103 42 3 1 101 44 142 1.37e-21 83.2

Find 27 sgRNAs with CRISPR-Local

Find 30 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTGCTGTTTGCTCTGTTGC+TGG 0.185357 3:-24441739 MsG0380012779.01.T01:CDS
CTGCTGTTTGCTCTGTTGCT+GGG 0.300217 3:-24441738 MsG0380012779.01.T01:CDS
ATCCTCAATCCTCGGCTTCC+CGG 0.362856 3:-24441914 MsG0380012779.01.T01:CDS
CTCTGTTGCTGGGGTTGCAA+TGG 0.391387 3:-24441728 MsG0380012779.01.T01:CDS
GTTGGCATAGTGACACAAAC+AGG 0.491066 3:+24441655 None:intergenic
AATGCTGTCCGAGCAGTTGA+AGG 0.499596 3:-24441838 MsG0380012779.01.T01:CDS
GCTTCCCGGCTGTAACCAAC+CGG 0.507766 3:-24441900 MsG0380012779.01.T01:CDS
TGCTGTTTGCTCTGTTGCTG+GGG 0.508878 3:-24441737 MsG0380012779.01.T01:CDS
AACAACAAAGAGGGCAGCAA+TGG 0.517711 3:-24441793 MsG0380012779.01.T01:CDS
TCTTCTCCTCTGCGATGCTA+CGG 0.528081 3:+24441873 None:intergenic
AGCCGGGAAGCCGAGGATTG+AGG 0.531969 3:+24441912 None:intergenic
TCTGCGATGCTACGGATGAC+CGG 0.544879 3:+24441881 None:intergenic
ACAAAGAGGGCAGCAATGGA+AGG 0.546411 3:-24441789 MsG0380012779.01.T01:CDS
GATGACCGGTTGGTTACAGC+CGG 0.561463 3:+24441895 None:intergenic
ATGCTGTCCGAGCAGTTGAA+GGG 0.565277 3:-24441837 MsG0380012779.01.T01:CDS
GCCGAGGATTGAGGATGTCA+TGG 0.565591 3:+24441921 None:intergenic
TGGTTACAGCCGGGAAGCCG+AGG 0.566698 3:+24441905 None:intergenic
ACCATGACATCCTCAATCCT+CGG 0.573002 3:-24441922 MsG0380012779.01.T01:CDS
GTGTCACTATGCCAACAGCT+AGG 0.576409 3:-24441648 MsG0380012779.01.T01:CDS
TTGCGACAAATCCTAGCTGT+TGG 0.581063 3:+24441637 None:intergenic
TGCTGTCCGAGCAGTTGAAG+GGG 0.590682 3:-24441836 MsG0380012779.01.T01:CDS
CGATGCTACGGATGACCGGT+TGG 0.597909 3:+24441885 None:intergenic
CAAATATGATAACAACAAAG+AGG 0.606053 3:-24441803 MsG0380012779.01.T01:CDS
GCAGATGATGAACCTAAAAG+AGG 0.606913 3:-24441706 MsG0380012779.01.T01:CDS
AAATATGATAACAACAAAGA+GGG 0.618750 3:-24441802 MsG0380012779.01.T01:CDS
ATGACCGGTTGGTTACAGCC+GGG 0.647755 3:+24441896 None:intergenic
GGTCATCCGTAGCATCGCAG+AGG 0.728401 3:-24441879 MsG0380012779.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATATGATAACAACAAAGA+GGG - Chr3:24441750-24441769 MsG0380012779.01.T01:CDS 20.0%
! CAAATATGATAACAACAAAG+AGG - Chr3:24441749-24441768 MsG0380012779.01.T01:CDS 25.0%
!!! ATACTTTTTCTTTGCTTCTG+GGG + Chr3:24441874-24441893 None:intergenic 30.0%
!!! CATACTTTTTCTTTGCTTCT+GGG + Chr3:24441875-24441894 None:intergenic 30.0%
!!! GCATACTTTTTCTTTGCTTC+TGG + Chr3:24441876-24441895 None:intergenic 35.0%
GCAGATGATGAACCTAAAAG+AGG - Chr3:24441846-24441865 MsG0380012779.01.T01:CDS 40.0%
AACAACAAAGAGGGCAGCAA+TGG - Chr3:24441759-24441778 MsG0380012779.01.T01:CDS 45.0%
GTTGGCATAGTGACACAAAC+AGG + Chr3:24441900-24441919 None:intergenic 45.0%
TTGCGACAAATCCTAGCTGT+TGG + Chr3:24441918-24441937 None:intergenic 45.0%
! TCTTTTCCCCTTCAACTGCT+CGG + Chr3:24441725-24441744 None:intergenic 45.0%
AATGCTGTCCGAGCAGTTGA+AGG - Chr3:24441714-24441733 MsG0380012779.01.T01:CDS 50.0%
ACAAAGAGGGCAGCAATGGA+AGG - Chr3:24441763-24441782 MsG0380012779.01.T01:CDS 50.0%
ATGCTGTCCGAGCAGTTGAA+GGG - Chr3:24441715-24441734 MsG0380012779.01.T01:CDS 50.0%
TCTTCTCCTCTGCGATGCTA+CGG + Chr3:24441682-24441701 None:intergenic 50.0%
! CTGCTGTTTGCTCTGTTGCT+GGG - Chr3:24441814-24441833 MsG0380012779.01.T01:CDS 50.0%
! GTGTCACTATGCCAACAGCT+AGG - Chr3:24441904-24441923 MsG0380012779.01.T01:CDS 50.0%
! TGCTGTTTGCTCTGTTGCTG+GGG - Chr3:24441815-24441834 MsG0380012779.01.T01:CDS 50.0%
!!! GCTTCTGGGGTACCTCTTTT+AGG + Chr3:24441861-24441880 None:intergenic 50.0%
ATCCTCAATCCTCGGCTTCC+CGG - Chr3:24441638-24441657 MsG0380012779.01.T01:CDS 55.0%
CTCTGTTGCTGGGGTTGCAA+TGG - Chr3:24441824-24441843 MsG0380012779.01.T01:CDS 55.0%
TCTGCGATGCTACGGATGAC+CGG + Chr3:24441674-24441693 None:intergenic 55.0%
TGCTGTCCGAGCAGTTGAAG+GGG - Chr3:24441716-24441735 MsG0380012779.01.T01:CDS 55.0%
! ATGACCGGTTGGTTACAGCC+GGG + Chr3:24441659-24441678 None:intergenic 55.0%
! GATGACCGGTTGGTTACAGC+CGG + Chr3:24441660-24441679 None:intergenic 55.0%
! GCTGCTGTTTGCTCTGTTGC+TGG - Chr3:24441813-24441832 MsG0380012779.01.T01:CDS 55.0%
CGATGCTACGGATGACCGGT+TGG + Chr3:24441670-24441689 None:intergenic 60.0%
GCTTCCCGGCTGTAACCAAC+CGG - Chr3:24441652-24441671 MsG0380012779.01.T01:CDS 60.0%
GGTCATCCGTAGCATCGCAG+AGG - Chr3:24441673-24441692 MsG0380012779.01.T01:CDS 60.0%
AGCCGGGAAGCCGAGGATTG+AGG + Chr3:24441643-24441662 None:intergenic 65.0%
TGGTTACAGCCGGGAAGCCG+AGG + Chr3:24441650-24441669 None:intergenic 65.0%
Chromosome Type Strat End Strand Name
Chr3 gene 24441633 24441941 24441633 ID=MsG0380012779.01;Name=MsG0380012779.01
Chr3 mRNA 24441633 24441941 24441633 ID=MsG0380012779.01.T01;Parent=MsG0380012779.01;Name=MsG0380012779.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|102
Chr3 exon 24441633 24441941 24441633 ID=MsG0380012779.01.T01:exon:8841;Parent=MsG0380012779.01.T01
Chr3 CDS 24441633 24441941 24441633 ID=MsG0380012779.01.T01:cds;Parent=MsG0380012779.01.T01
Gene Sequence

>MsG0380012779.01.T01

ATGACATCCTCAATCCTCGGCTTCCCGGCTGTAACCAACCGGTCATCCGTAGCATCGCAGAGGAGAAGACTTGTCGTCGTCAATGCTGTCCGAGCAGTTGAAGGGGAAAAGATGATCAAATATGATAACAACAAAGAGGGCAGCAATGGAAGGAGAGACTTGATGTTTGCTGCAGCAGCAGCTGCTGTTTGCTCTGTTGCTGGGGTTGCAATGGCAGATGATGAACCTAAAAGAGGTACCCCAGAAGCAAAGAAAAAGTATGCTCCTGTTTGTGTCACTATGCCAACAGCTAGGATTTGTCGCAATTGA

Protein sequence

>MsG0380012779.01.T01

MTSSILGFPAVTNRSSVASQRRRLVVVNAVRAVEGEKMIKYDNNKEGSNGRRDLMFAAAAAAVCSVAGVAMADDEPKRGTPEAKKKYAPVCVTMPTARICRN*