AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280010165.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010165.01.T01 MTR_2g078730 100.000 48 0 0 69 116 182 229 2.34e-27 103
MsG0280010165.01.T01 MTR_1g026860 64.583 48 17 0 69 116 221 268 6.65e-17 75.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010165.01.T01 AT5G57850 64.583 48 17 0 69 116 211 258 5.11e-16 72.8
MsG0280010165.01.T01 AT5G57850 64.583 48 17 0 69 116 134 181 2.89e-15 70.1

Find 29 sgRNAs with CRISPR-Local

Find 128 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATTGTTTGTTTGTTTGTTT+AGG 0.309251 2:-65505018 None:intergenic
GCAAATAAAGGTGCCTTCAT+TGG 0.359777 2:-65506880 None:intergenic
TCTAATACGGAAAGTACATT+TGG 0.368821 2:-65506928 None:intergenic
AAGGTGCATTTGGTTCTATA+TGG 0.376862 2:+65506962 MsG0280010165.01.T01:CDS
GCTGAAGAGAAAGGTGCATT+TGG 0.425574 2:+65506952 MsG0280010165.01.T01:CDS
TTTCTCTTCAGCTTCTAATA+CGG 0.429071 2:-65506941 None:intergenic
GTTTGTTTGTTTGTTTAGGA+CGG 0.454083 2:-65505014 None:intergenic
TCTATATGGATTGATGAGGT+TGG 0.504339 2:+65506976 MsG0280010165.01.T01:CDS
ATTATCATAATGACGAAAGA+TGG 0.514851 2:+65504932 None:intergenic
ACTGAGACCACTGCAACCTC+TGG 0.521559 2:+65505212 MsG0280010165.01.T01:CDS
GAGGTTGCAGTGGTCTCAGT+AGG 0.525496 2:-65505209 None:intergenic
GATTTCTCTCAGTGCAAAGA+AGG 0.541297 2:+65506833 MsG0280010165.01.T01:intron
GGTGATATAGTAATGATAGC+AGG 0.547949 2:-65505080 None:intergenic
TTACTTCCATGTACCAATGA+AGG 0.560843 2:+65506867 MsG0280010165.01.T01:CDS
AGGTTGCAGTGGTCTCAGTA+GGG 0.572433 2:-65505208 None:intergenic
CTACAAAGCAAGAGAAGGAA+TGG 0.578037 2:-65505110 None:intergenic
GTATTAGAAGCTGAAGAGAA+AGG 0.586831 2:+65506943 MsG0280010165.01.T01:CDS
AAGAGAAGGAATGGTGGTGG+TGG 0.592555 2:-65505101 None:intergenic
AAGGTGCCTTCATTGGTACA+TGG 0.614391 2:-65506873 None:intergenic
AAGTGCTACAAAGCAAGAGA+AGG 0.616157 2:-65505115 None:intergenic
AGCAAGAGAAGGAATGGTGG+TGG 0.618774 2:-65505104 None:intergenic
ATCATAATGACGAAAGATGG+TGG 0.623788 2:+65504935 None:intergenic
TGGTTCTATATGGATTGATG+AGG 0.634951 2:+65506972 MsG0280010165.01.T01:CDS
GAGGTTGGTTATATTGCTGA+AGG 0.635904 2:+65506991 MsG0280010165.01.T01:CDS
CAACTCACCAGAGGTTGCAG+TGG 0.666043 2:-65505219 None:intergenic
ACAGAAGAACATGACAAAGG+TGG 0.672255 2:-65505051 None:intergenic
CAAAGCAAGAGAAGGAATGG+TGG 0.675306 2:-65505107 None:intergenic
AGAACAGAAGAACATGACAA+AGG 0.683986 2:-65505054 None:intergenic
GCACTTCACAAAGTACACAG+TGG 0.777823 2:+65505132 MsG0280010165.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATTCTATCATATTATAAGA+TGG - Chr2:65505483-65505502 None:intergenic 15.0%
!! TTAAAGTTTCAAATTAGAAT+AGG - Chr2:65505267-65505286 None:intergenic 15.0%
!!! ATTCTAATTTGAAACTTTAA+TGG + Chr2:65505267-65505286 MsG0280010165.01.T01:intron 15.0%
!! ACTAAAAATTATTCCAGTTA+GGG - Chr2:65506287-65506306 None:intergenic 20.0%
!! AGAGTTAAAAAATGCATTAT+TGG + Chr2:65506514-65506533 MsG0280010165.01.T01:intron 20.0%
!! TATTGTTTGTTTGTTTGTTT+AGG - Chr2:65505021-65505040 None:intergenic 20.0%
!!! AATTTTTTCTTTACTTCATG+GGG + Chr2:65505183-65505202 MsG0280010165.01.T01:CDS 20.0%
!!! GAATTTTTTCTTTACTTCAT+GGG + Chr2:65505182-65505201 MsG0280010165.01.T01:CDS 20.0%
!!! TGAATTTTTTCTTTACTTCA+TGG + Chr2:65505181-65505200 MsG0280010165.01.T01:CDS 20.0%
!!! TGTTCTTATTGTATATGTTT+TGG + Chr2:65505344-65505363 MsG0280010165.01.T01:intron 20.0%
!!! TTTTGATGTTGTTATACAAT+TGG - Chr2:65504964-65504983 None:intergenic 20.0%
!!! TTTTTCATTGTTGCAAATAA+AGG - Chr2:65506895-65506914 None:intergenic 20.0%
! ATACTGCTATTATGTTTGAA+GGG + Chr2:65506146-65506165 MsG0280010165.01.T01:intron 25.0%
! CAAAGCTTATTAAATCAAAG+TGG + Chr2:65506199-65506218 MsG0280010165.01.T01:intron 25.0%
! GAATAAGAATTATGTTGCAT+CGG + Chr2:65505716-65505735 MsG0280010165.01.T01:intron 25.0%
! GACTAAAAATTATTCCAGTT+AGG - Chr2:65506288-65506307 None:intergenic 25.0%
! TATGACACTTAACACTAAAA+CGG - Chr2:65505862-65505881 None:intergenic 25.0%
! TTAAAGTTTGCAAGTTTCAT+TGG + Chr2:65505954-65505973 MsG0280010165.01.T01:intron 25.0%
!! AAGTAGTTAAGCTTTAGTTA+AGG + Chr2:65506230-65506249 MsG0280010165.01.T01:intron 25.0%
!! TGCTTTACTAGTTCATATTT+TGG + Chr2:65505293-65505312 MsG0280010165.01.T01:intron 25.0%
!!! GCTAAATTTGTTTTCTTTCT+TGG + Chr2:65505366-65505385 MsG0280010165.01.T01:intron 25.0%
AACTAAAGCTTAACTACTTC+AGG - Chr2:65506229-65506248 None:intergenic 30.0%
AATAGGATCACAAAAACTGA+AGG - Chr2:65505250-65505269 None:intergenic 30.0%
ATGGTACTACAAAAAAGTGA+AGG - Chr2:65505464-65505483 None:intergenic 30.0%
ATGTATTCTAGTGTATATGG+AGG + Chr2:65506048-65506067 MsG0280010165.01.T01:intron 30.0%
ATTCAGTGCTTCAAAAGATA+AGG + Chr2:65505881-65505900 MsG0280010165.01.T01:intron 30.0%
CAGCATTCTAATACAACTAA+CGG + Chr2:65506692-65506711 MsG0280010165.01.T01:intron 30.0%
GAATAAGAACTATGTAGCAT+CGG + Chr2:65505542-65505561 MsG0280010165.01.T01:intron 30.0%
GATACTGCTATTATGTTTGA+AGG + Chr2:65506145-65506164 MsG0280010165.01.T01:intron 30.0%
GCTATGTATTCTAGTGTATA+TGG + Chr2:65506045-65506064 MsG0280010165.01.T01:intron 30.0%
GCTTATTAAATCAAAGTGGT+TGG + Chr2:65506203-65506222 MsG0280010165.01.T01:intron 30.0%
GTTTGTTTGTTTGTTTAGGA+CGG - Chr2:65505017-65505036 None:intergenic 30.0%
TACATAGTTCTTATTCCACT+AGG - Chr2:65505538-65505557 None:intergenic 30.0%
TAGAAAAGCTTCATCAAACA+TGG + Chr2:65505995-65506014 MsG0280010165.01.T01:intron 30.0%
TAGTTAAGGTTGAATCACTT+GGG + Chr2:65506244-65506263 MsG0280010165.01.T01:intron 30.0%
TATACACTAGAATACATAGC+TGG - Chr2:65506045-65506064 None:intergenic 30.0%
TCGGTAATGATTTGAGAAAA+TGG - Chr2:65505826-65505845 None:intergenic 30.0%
TTAACTCTACAGTTCCTATA+GGG - Chr2:65506502-65506521 None:intergenic 30.0%
TTAGTTAAGGTTGAATCACT+TGG + Chr2:65506243-65506262 MsG0280010165.01.T01:intron 30.0%
TTTAACTCTACAGTTCCTAT+AGG - Chr2:65506503-65506522 None:intergenic 30.0%
TTTCTCTTCAGCTTCTAATA+CGG - Chr2:65506944-65506963 None:intergenic 30.0%
! GAGATTATTCTTGCTTTGTT+TGG + Chr2:65506333-65506352 MsG0280010165.01.T01:intron 30.0%
! TCTAATACGGAAAGTACATT+TGG - Chr2:65506931-65506950 None:intergenic 30.0%
!! CTTCATTTTGAAAATGTCTC+TGG + Chr2:65505567-65505586 MsG0280010165.01.T01:intron 30.0%
!! TATTCTTGCTTTGTTTGGTT+TGG + Chr2:65506338-65506357 MsG0280010165.01.T01:intron 30.0%
AAGTCAGCTATATGTATCGA+AGG - Chr2:65505513-65505532 None:intergenic 35.0%
AATCCCAATAGATGATCACA+TGG + Chr2:65506098-65506117 MsG0280010165.01.T01:intron 35.0%
AGAACAGAAGAACATGACAA+AGG - Chr2:65505057-65505076 None:intergenic 35.0%
AGTTAAGGTTGAATCACTTG+GGG + Chr2:65506245-65506264 MsG0280010165.01.T01:intron 35.0%
CATAAATCATAGTGCCTGTT+TGG - Chr2:65506469-65506488 None:intergenic 35.0%
CATTCGTACTTTATCCAAAC+AGG + Chr2:65506452-65506471 MsG0280010165.01.T01:intron 35.0%
CATTCTAATACAACTAACGG+CGG + Chr2:65506695-65506714 MsG0280010165.01.T01:intron 35.0%
CTAGAATACATAGCTGGATA+TGG - Chr2:65506039-65506058 None:intergenic 35.0%
CTGTTTGGATAAAGTACGAA+TGG - Chr2:65506454-65506473 None:intergenic 35.0%
GATTTCTTACTGTCATCTTC+AGG + Chr2:65506770-65506789 MsG0280010165.01.T01:intron 35.0%
GGTGATATAGTAATGATAGC+AGG - Chr2:65505083-65505102 None:intergenic 35.0%
GTACCATGTGATCATCTATT+GGG - Chr2:65506104-65506123 None:intergenic 35.0%
GTATTAGAAGCTGAAGAGAA+AGG + Chr2:65506943-65506962 MsG0280010165.01.T01:CDS 35.0%
TAACTCTACAGTTCCTATAG+GGG - Chr2:65506501-65506520 None:intergenic 35.0%
TGAGGCTGATCTTAAAGAAA+CGG - Chr2:65506631-65506650 None:intergenic 35.0%
TGATCTTAAAGAAACGGTCA+AGG - Chr2:65506625-65506644 None:intergenic 35.0%
TGTACCATGTGATCATCTAT+TGG - Chr2:65506105-65506124 None:intergenic 35.0%
TTACTTCCATGTACCAATGA+AGG + Chr2:65506867-65506886 MsG0280010165.01.T01:CDS 35.0%
! ATATAGCTGACTTTACCTAG+TGG + Chr2:65505520-65505539 MsG0280010165.01.T01:intron 35.0%
! TCTATATGGATTGATGAGGT+TGG + Chr2:65506976-65506995 MsG0280010165.01.T01:CDS 35.0%
! TGGTTCTATATGGATTGATG+AGG + Chr2:65506972-65506991 MsG0280010165.01.T01:CDS 35.0%
!! AAGGTGCATTTGGTTCTATA+TGG + Chr2:65506962-65506981 MsG0280010165.01.T01:CDS 35.0%
!! AGAAAGGAACTCTAAGATAC+TGG + Chr2:65506729-65506748 MsG0280010165.01.T01:intron 35.0%
AAACGGTAACACGTAGACAT+CGG - Chr2:65505845-65505864 None:intergenic 40.0%
AAGTGCTACAAAGCAAGAGA+AGG - Chr2:65505118-65505137 None:intergenic 40.0%
ACAGAAGAACATGACAAAGG+TGG - Chr2:65505054-65505073 None:intergenic 40.0%
ACAGTTCCTATAGGGGAAAA+GGG - Chr2:65506494-65506513 None:intergenic 40.0%
ATTGGGATTACCATCATTGC+TGG - Chr2:65506087-65506106 None:intergenic 40.0%
CATACTTGATCCAGCAATGA+TGG + Chr2:65506074-65506093 MsG0280010165.01.T01:intron 40.0%
CTACAAAGCAAGAGAAGGAA+TGG - Chr2:65505113-65505132 None:intergenic 40.0%
GAATAATCTCTTCGACTGTG+TGG - Chr2:65506323-65506342 None:intergenic 40.0%
GATGACAGTAAGAAATCTCC+AGG - Chr2:65506767-65506786 None:intergenic 40.0%
GATGATCACATGGTACATAG+AGG + Chr2:65506108-65506127 MsG0280010165.01.T01:intron 40.0%
GATTTCTCTCAGTGCAAAGA+AGG + Chr2:65506833-65506852 MsG0280010165.01.T01:intron 40.0%
GCTTCATCAAACATGGAGTT+CGG + Chr2:65506002-65506021 MsG0280010165.01.T01:intron 40.0%
GGCGGTATCAAATTGAAGAA+AGG + Chr2:65506713-65506732 MsG0280010165.01.T01:intron 40.0%
TACAGTTCCTATAGGGGAAA+AGG - Chr2:65506495-65506514 None:intergenic 40.0%
TCTCAGCTTCAAGAAAGTCA+CGG - Chr2:65506402-65506421 None:intergenic 40.0%
TGTCGTGTCAGTGTCAAATA+AGG - Chr2:65505607-65505626 None:intergenic 40.0%
TTCCAGTTAGGGATTGAACT+CGG - Chr2:65506276-65506295 None:intergenic 40.0%
! ATGTAGCTGACTTCACATAG+TGG + Chr2:65505694-65505713 MsG0280010165.01.T01:intron 40.0%
! CGTTTTCTCTTCATCATCTG+AGG + Chr2:65505426-65505445 MsG0280010165.01.T01:intron 40.0%
! CTAAGATACTGGTTAAGTGC+AGG + Chr2:65506740-65506759 MsG0280010165.01.T01:intron 40.0%
! GAGGTTGGTTATATTGCTGA+AGG + Chr2:65506991-65507010 MsG0280010165.01.T01:CDS 40.0%
!! CGAGGATATCTTTGCTTTTG+AGG - Chr2:65506649-65506668 None:intergenic 40.0%
!! GCAAATAAAGGTGCCTTCAT+TGG - Chr2:65506883-65506902 None:intergenic 40.0%
!! TCTTGCTTTGTTTGGTTTGG+CGG + Chr2:65506341-65506360 MsG0280010165.01.T01:intron 40.0%
!!! CTTCATTTTGGAAGTGTCTC+TGG + Chr2:65505741-65505760 MsG0280010165.01.T01:intron 40.0%
AAGTACGAATGGCCAAAGCA+CGG - Chr2:65506443-65506462 None:intergenic 45.0%
AGCAGTATCAAAACACGCCA+TGG - Chr2:65506134-65506153 None:intergenic 45.0%
AGTCACGGCAAATCATGCAT+TGG - Chr2:65506387-65506406 None:intergenic 45.0%
ATCTCTTCGACTGTGTGGTA+AGG - Chr2:65506318-65506337 None:intergenic 45.0%
ATGACTACTGCGTAGAATGC+AGG - Chr2:65506806-65506825 None:intergenic 45.0%
ATGCATTGGGAAGCGAGAAT+TGG - Chr2:65506373-65506392 None:intergenic 45.0%
CAAAGCAAGAGAAGGAATGG+TGG - Chr2:65505110-65505129 None:intergenic 45.0%
CTCAAGACACCTCTATGAGT+TGG + Chr2:65506592-65506611 MsG0280010165.01.T01:intron 45.0%
GCACTTCACAAAGTACACAG+TGG + Chr2:65505132-65505151 MsG0280010165.01.T01:CDS 45.0%
GGTGAACATCCAACTCATAG+AGG - Chr2:65506604-65506623 None:intergenic 45.0%
GTCACGGCAAATCATGCATT+GGG - Chr2:65506386-65506405 None:intergenic 45.0%
TCATCAAACATGGAGTTCGG+TGG + Chr2:65506005-65506024 MsG0280010165.01.T01:intron 45.0%
TCCAGTTAGGGATTGAACTC+GGG - Chr2:65506275-65506294 None:intergenic 45.0%
TGCATTGGGAAGCGAGAATT+GGG - Chr2:65506372-65506391 None:intergenic 45.0%
! AAGGTGCCTTCATTGGTACA+TGG - Chr2:65506876-65506895 None:intergenic 45.0%
! CGAAGAGTTGATCGCGAAAA+AGG - Chr2:65506672-65506691 None:intergenic 45.0%
! GCTGAAGAGAAAGGTGCATT+TGG + Chr2:65506952-65506971 MsG0280010165.01.T01:CDS 45.0%
! TATGTGCCCTTTTCCCCTAT+AGG + Chr2:65506485-65506504 MsG0280010165.01.T01:intron 45.0%
!! GTTGCATCGGCACTTCATTT+TGG + Chr2:65505729-65505748 MsG0280010165.01.T01:intron 45.0%
ACCCGAGTTCAATCCCTAAC+TGG + Chr2:65506271-65506290 MsG0280010165.01.T01:intron 50.0%
ACTGCAACCTCTGGTGAGTT+GGG + Chr2:65505221-65505240 MsG0280010165.01.T01:intron 50.0%
ACTGCGTAGAATGCAGGTGT+TGG - Chr2:65506800-65506819 None:intergenic 50.0%
AGCAAGAGAAGGAATGGTGG+TGG - Chr2:65505107-65505126 None:intergenic 50.0%
AGGTTGCAGTGGTCTCAGTA+GGG - Chr2:65505211-65505230 None:intergenic 50.0%
AGTTGATCGCGAAAAAGGCG+AGG - Chr2:65506667-65506686 None:intergenic 50.0%
CACATGGTACATAGAGGCCA+TGG + Chr2:65506114-65506133 MsG0280010165.01.T01:intron 50.0%
GAGTTAGACTTGCCGTGCTT+TGG + Chr2:65506428-65506447 MsG0280010165.01.T01:intron 50.0%
! TACTGGTTAAGTGCAGGTCC+TGG + Chr2:65506746-65506765 MsG0280010165.01.T01:intron 50.0%
!! AAGAGAAGGAATGGTGGTGG+TGG - Chr2:65505104-65505123 None:intergenic 50.0%
AAGGCAACCCAACTCACCAG+AGG - Chr2:65505231-65505250 None:intergenic 55.0%
ACTGAGACCACTGCAACCTC+TGG + Chr2:65505212-65505231 MsG0280010165.01.T01:CDS 55.0%
CAACTCACCAGAGGTTGCAG+TGG - Chr2:65505222-65505241 None:intergenic 55.0%
CACTGCAACCTCTGGTGAGT+TGG + Chr2:65505220-65505239 MsG0280010165.01.T01:intron 55.0%
CTGACACGACACTACGCATG+TGG + Chr2:65505616-65505635 MsG0280010165.01.T01:intron 55.0%
GAGGTTGCAGTGGTCTCAGT+AGG - Chr2:65505212-65505231 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr2 gene 65504943 65507020 65504943 ID=MsG0280010165.01;Name=MsG0280010165.01
Chr2 mRNA 65504943 65507020 65504943 ID=MsG0280010165.01.T01;Parent=MsG0280010165.01;Name=MsG0280010165.01.T01;_AED=0.34;_eAED=0.34;_QI=119|0|0.5|1|0|0|2|0|116
Chr2 exon 65506845 65507020 65506845 ID=MsG0280010165.01.T01:exon:14193;Parent=MsG0280010165.01.T01
Chr2 exon 65504943 65505233 65504943 ID=MsG0280010165.01.T01:exon:14192;Parent=MsG0280010165.01.T01
Chr2 five_prime_UTR 65504943 65505061 65504943 ID=MsG0280010165.01.T01:five_prime_utr;Parent=MsG0280010165.01.T01
Chr2 CDS 65505062 65505233 65505062 ID=MsG0280010165.01.T01:cds;Parent=MsG0280010165.01.T01
Chr2 CDS 65506845 65507020 65506845 ID=MsG0280010165.01.T01:cds;Parent=MsG0280010165.01.T01
Gene Sequence

>MsG0280010165.01.T01

ATGTTCTTCTGTTCTTTTCCTGCTATCATTACTATATCACCACCACCACCATTCCTTCTCTTGCTTTGTAGCACTTCACAAAGTACACAGTGGTTTTTACATACATATATTTGTGATTTTGAATTTTTTCTTTACTTCATGGGGAACCCTACTGAGACCACTGCAACCTCTGTGCAAAGAAGGTGTCAAAGTGATTACTTCCATGTACCAATGAAGGCACCTTTATTTGCAACAATGAAAAATGTGAACTATCTTCCAAATGTACTTTCCGTATTAGAAGCTGAAGAGAAAGGTGCATTTGGTTCTATATGGATTGATGAGGTTGGTTATATTGCTGAAGGACCAAAT
Protein sequence

>MsG0280010165.01.T01

MFFCSFPAIITISPPPPFLLLLCSTSQSTQWFLHTYICDFEFFLYFMGNPTETTATSVQRRCQSDYFHVPMKAPLFATMKNVNYLPNVLSVLEAEEKGAFGSIWIDEVGYIAEGPN