AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680034890.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680034890.01.T01 MTR_6g478190 92.727 165 12 0 1 165 1 165 2.76e-112 316
MsG0680034890.01.T01 MTR_7g086130 40.449 89 53 0 12 100 9 97 5.11e-20 82.8
MsG0680034890.01.T01 MTR_5g087470 43.158 95 54 0 6 100 5 99 1.55e-18 80.1
MsG0680034890.01.T01 MTR_6g079910 89.474 38 4 0 1 38 1 38 1.92e-18 76.3
MsG0680034890.01.T01 MTR_5g087450 42.697 89 51 0 12 100 12 100 2.46e-18 79.3
MsG0680034890.01.T01 MTR_7g086130 38.298 94 53 1 12 100 9 102 1.71e-17 76.3
MsG0680034890.01.T01 MTR_5g087480 32.061 131 81 3 1 126 1 128 2.01e-14 69.7
MsG0680034890.01.T01 MTR_5g087480 35.417 96 59 2 1 96 1 93 1.96e-13 66.6
MsG0680034890.01.T01 MTR_4g107860 31.818 110 72 1 15 124 23 129 1.77e-12 63.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680034890.01.T01 AT1G54400 43.750 96 53 1 7 101 6 101 9.78e-22 87.0
MsG0680034890.01.T01 AT2G27140 40.385 104 62 0 1 104 1 104 1.27e-20 85.1
MsG0680034890.01.T01 AT5G20970 40.000 115 66 2 12 124 8 121 7.11e-18 78.2
MsG0680034890.01.T01 AT5G04890 39.773 88 52 1 14 100 16 103 6.12e-15 71.2

Find 29 sgRNAs with CRISPR-Local

Find 82 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCATAGAGAAACATTCATTT+TGG 0.198351 6:-96300044 MsG0680034890.01.T01:CDS
ATGAAAATGAAGCATAAATT+TGG 0.199243 6:-96299838 MsG0680034890.01.T01:three_prime_UTR
TTTCTCTATGGTTGCATCTT+TGG 0.207665 6:+96300056 None:intergenic
CCACCAGTCATCACATTTAA+TGG 0.209694 6:-96301009 MsG0680034890.01.T01:exon
CCAAAATGAATGTTTCTCTA+TGG 0.325882 6:+96300044 None:intergenic
AAAATCTTCATACAATCTTT+TGG 0.330843 6:+96300962 None:intergenic
TCCTGATTTCTTTGTGGAAA+CGG 0.353868 6:+96300172 None:intergenic
TTGAAATCCTGATTTCTTTG+TGG 0.360661 6:+96300166 None:intergenic
ACAACAATTCAAATTGTGAT+TGG 0.374136 6:-96300000 MsG0680034890.01.T01:CDS
AAGGTTCAAACTAACGATAA+AGG 0.388478 6:-96300243 MsG0680034890.01.T01:CDS
GCCGTTTCCACAAAGAAATC+AGG 0.392632 6:-96300173 MsG0680034890.01.T01:CDS
AAACAACATCATGATGCATT+TGG 0.402983 6:-96299925 MsG0680034890.01.T01:CDS
TCAAATTGTGATTGGAGTAA+TGG 0.419262 6:-96299992 MsG0680034890.01.T01:CDS
GGTAGTAGCTTCAGCAACTT+TGG 0.424641 6:+96300983 None:intergenic
TTTGTGATCCATTTGCAGTA+AGG 0.441165 6:+96300936 None:intergenic
CAAGAGATTGTGATGTGAAT+GGG 0.446532 6:-96300146 MsG0680034890.01.T01:CDS
AGGTTCAAACTAACGATAAA+GGG 0.452103 6:-96300242 MsG0680034890.01.T01:CDS
ATTTATGGAGAAAGGACTCT+TGG 0.477919 6:-96300210 MsG0680034890.01.T01:CDS
TCAAGAGATTGTGATGTGAA+TGG 0.485526 6:-96300147 MsG0680034890.01.T01:CDS
ATTCTAGAGATTGATTTGAA+AGG 0.547773 6:-96300900 MsG0680034890.01.T01:intron
GTAATGGCTATGGTTGCACT+AGG 0.553548 6:-96299976 MsG0680034890.01.T01:CDS
TTTCCATTAAATGTGATGAC+TGG 0.556530 6:+96301006 None:intergenic
CCATTAAATGTGATGACTGG+TGG 0.572435 6:+96301009 None:intergenic
TGTGATTGGAGTAATGGCTA+TGG 0.602709 6:-96299986 MsG0680034890.01.T01:CDS
TGCAAATGGATCACAAAGGA+AGG 0.605441 6:-96300930 MsG0680034890.01.T01:CDS
GGTTGCACTAGGGACTTATG+TGG 0.633161 6:-96299965 MsG0680034890.01.T01:CDS
TAATGGCTATGGTTGCACTA+GGG 0.679191 6:-96299975 MsG0680034890.01.T01:CDS
GTTTGATGAGAAAGTGAGCG+AGG 0.718574 6:-96299801 MsG0680034890.01.T01:three_prime_UTR
TTACTGCAAATGGATCACAA+AGG 0.775712 6:-96300934 MsG0680034890.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAATTTATTAAAATCTGTA+AGG + Chr6:96300127-96300146 None:intergenic 10.0%
!! AAATTTATTAAAATCTGTAA+GGG + Chr6:96300126-96300145 None:intergenic 10.0%
!! CAAAAAAAAAAAATTATAGT+TGG - Chr6:96300076-96300095 MsG0680034890.01.T01:CDS 10.0%
!! TATAATATTTAGTAAAATAG+AGG + Chr6:96300189-96300208 None:intergenic 10.0%
!!! CTATTTTACTAAATATTATA+AGG - Chr6:96300189-96300208 MsG0680034890.01.T01:CDS 10.0%
!! AATTAGACAAAATAATTGTT+TGG + Chr6:96300321-96300340 None:intergenic 15.0%
!! ACCAATATTTGTTTATTAAA+TGG + Chr6:96300500-96300519 None:intergenic 15.0%
!! ACCATTTAATAAACAAATAT+TGG - Chr6:96300496-96300515 MsG0680034890.01.T01:intron 15.0%
!!! ATTTCTAACGTTTTTTATTT+TGG + Chr6:96300446-96300465 None:intergenic 15.0%
!!! GAATTTGAAACATTTTTTTT+AGG - Chr6:96300216-96300235 MsG0680034890.01.T01:CDS 15.0%
!!! TACGAAATTTATATTTTAAG+AGG - Chr6:96299989-96300008 MsG0680034890.01.T01:CDS 15.0%
!!! TTTCTAACGTTTTTTATTTT+GGG + Chr6:96300445-96300464 None:intergenic 15.0%
!! AAAATTATAGTTGGGTTATT+TGG - Chr6:96300085-96300104 MsG0680034890.01.T01:CDS 20.0%
!! ATGAAAATGAAGCATAAATT+TGG - Chr6:96300982-96301001 MsG0680034890.01.T01:CDS 20.0%
!!! AAAATCTTCATACAATCTTT+TGG + Chr6:96299861-96299880 None:intergenic 20.0%
!!! AATCATTTTAGGTTTCAAAA+AGG - Chr6:96300546-96300565 MsG0680034890.01.T01:intron 20.0%
!!! ATAAACAAATATTGGTCTAA+TGG - Chr6:96300504-96300523 MsG0680034890.01.T01:intron 20.0%
!!! CAATACATTTTCATAACTTT+TGG - Chr6:96299752-96299771 MsG0680034890.01.T01:three_prime_UTR 20.0%
!!! TAGTAAAATAGAGGATTTTA+TGG + Chr6:96300180-96300199 None:intergenic 20.0%
!!! TATTTCTCTTGAATCATTTT+AGG - Chr6:96300535-96300554 MsG0680034890.01.T01:intron 20.0%
! AAAGGGATCCTAAAAATTTA+TGG - Chr6:96300595-96300614 MsG0680034890.01.T01:intron 25.0%
! ACAACAATTCAAATTGTGAT+TGG - Chr6:96300820-96300839 MsG0680034890.01.T01:intron 25.0%
! CAAAAAATTGGGTAAATTAG+AGG + Chr6:96300410-96300429 None:intergenic 25.0%
! TCCTAAAAATTTATGGAGAA+AGG - Chr6:96300602-96300621 MsG0680034890.01.T01:intron 25.0%
! TTTCTCGACAACAAAAAATT+GGG + Chr6:96300421-96300440 None:intergenic 25.0%
!! AGGATTTTATGGTAAAAAAG+AGG + Chr6:96300169-96300188 None:intergenic 25.0%
!! ATAGAGAAACATTCATTTTG+GGG - Chr6:96300778-96300797 MsG0680034890.01.T01:intron 25.0%
!! CATAGAGAAACATTCATTTT+GGG - Chr6:96300777-96300796 MsG0680034890.01.T01:intron 25.0%
!! CTAACAAGAGTATATAATCA+AGG + Chr6:96299956-96299975 None:intergenic 25.0%
!! TCCTTTCTCCATAAATTTTT+AGG + Chr6:96300606-96300625 None:intergenic 25.0%
!! TGTTGAATTACTTCAGTTTT+TGG + Chr6:96300742-96300761 None:intergenic 25.0%
!! TTTTCTCGACAACAAAAAAT+TGG + Chr6:96300422-96300441 None:intergenic 25.0%
!!! ATTCTAGAGATTGATTTGAA+AGG - Chr6:96299920-96299939 MsG0680034890.01.T01:CDS 25.0%
!!! TGCTTCATTTTCATTTTTTG+CGG + Chr6:96300976-96300995 None:intergenic 25.0%
!!! TTTTGAGAAGAAAAGATAGT+GGG + Chr6:96300256-96300275 None:intergenic 25.0%
!!! TTTTTGAGAAGAAAAGATAG+TGG + Chr6:96300257-96300276 None:intergenic 25.0%
!!! TTTTTGTCTAACTTGCATAA+AGG + Chr6:96300062-96300081 None:intergenic 25.0%
AAAATCAGAGACATGGTATT+GGG - Chr6:96300027-96300046 MsG0680034890.01.T01:CDS 30.0%
AAACAACATCATGATGCATT+TGG - Chr6:96300895-96300914 MsG0680034890.01.T01:intron 30.0%
AAGGTTCAAACTAACGATAA+AGG - Chr6:96300577-96300596 MsG0680034890.01.T01:intron 30.0%
AGGTTCAAACTAACGATAAA+GGG - Chr6:96300578-96300597 MsG0680034890.01.T01:intron 30.0%
CCAAAATGAATGTTTCTCTA+TGG + Chr6:96300779-96300798 None:intergenic 30.0%
TAAAATCAGAGACATGGTAT+TGG - Chr6:96300026-96300045 MsG0680034890.01.T01:CDS 30.0%
TCAAATTGTGATTGGAGTAA+TGG - Chr6:96300828-96300847 MsG0680034890.01.T01:intron 30.0%
TTGAAATCCTGATTTCTTTG+TGG + Chr6:96300657-96300676 None:intergenic 30.0%
TTGGGTTATTTGGACAAAAA+GGG - Chr6:96300095-96300114 MsG0680034890.01.T01:CDS 30.0%
TTTCAAAAAGGAGCAACTTA+AGG - Chr6:96300558-96300577 MsG0680034890.01.T01:intron 30.0%
TTTCCATTAAATGTGATGAC+TGG + Chr6:96299817-96299836 None:intergenic 30.0%
TTTGAGAAGAAAAGATAGTG+GGG + Chr6:96300255-96300274 None:intergenic 30.0%
! AATACCATGTCTCTGATTTT+AGG + Chr6:96300027-96300046 None:intergenic 30.0%
! ATACCATGTCTCTGATTTTA+GGG + Chr6:96300026-96300045 None:intergenic 30.0%
! ATTCAAGCAAAGTTTTCTCA+AGG - Chr6:96300697-96300716 MsG0680034890.01.T01:intron 30.0%
! ATTTTGAACCTTACTGCAAA+TGG - Chr6:96299876-96299895 MsG0680034890.01.T01:three_prime_UTR 30.0%
! CCATAGAGAAACATTCATTT+TGG - Chr6:96300776-96300795 MsG0680034890.01.T01:intron 30.0%
! TAACTTGCATAAAGGACTAA+AGG + Chr6:96300054-96300073 None:intergenic 30.0%
! TAGAGAAACATTCATTTTGG+GGG - Chr6:96300779-96300798 MsG0680034890.01.T01:intron 30.0%
! TTCAAGCAAAGTTTTCTCAA+GGG - Chr6:96300698-96300717 MsG0680034890.01.T01:intron 30.0%
ATTTATGGAGAAAGGACTCT+TGG - Chr6:96300610-96300629 MsG0680034890.01.T01:intron 35.0%
CAAGAGATTGTGATGTGAAT+GGG - Chr6:96300674-96300693 MsG0680034890.01.T01:intron 35.0%
GTTGGGTTATTTGGACAAAA+AGG - Chr6:96300094-96300113 MsG0680034890.01.T01:CDS 35.0%
TATCCCTAAAATCAGAGACA+TGG - Chr6:96300020-96300039 MsG0680034890.01.T01:CDS 35.0%
TCAAGAGATTGTGATGTGAA+TGG - Chr6:96300673-96300692 MsG0680034890.01.T01:intron 35.0%
TCCTGATTTCTTTGTGGAAA+CGG + Chr6:96300651-96300670 None:intergenic 35.0%
TGGGTTATTTGGACAAAAAG+GGG - Chr6:96300096-96300115 MsG0680034890.01.T01:CDS 35.0%
TTACTGCAAATGGATCACAA+AGG - Chr6:96299886-96299905 MsG0680034890.01.T01:exon 35.0%
TTTCTCTATGGTTGCATCTT+TGG + Chr6:96300767-96300786 None:intergenic 35.0%
TTTGTGATCCATTTGCAGTA+AGG + Chr6:96299887-96299906 None:intergenic 35.0%
! AGAGAAACATTCATTTTGGG+GGG - Chr6:96300780-96300799 MsG0680034890.01.T01:intron 35.0%
!!! GATAGTGGGGCATTTTAATA+CGG + Chr6:96300242-96300261 None:intergenic 35.0%
CCACCAGTCATCACATTTAA+TGG - Chr6:96299811-96299830 MsG0680034890.01.T01:three_prime_UTR 40.0%
CCATTAAATGTGATGACTGG+TGG + Chr6:96299814-96299833 None:intergenic 40.0%
GTTATTTGGACAAAAAGGGG+TGG - Chr6:96300099-96300118 MsG0680034890.01.T01:CDS 40.0%
TAATGGCTATGGTTGCACTA+GGG - Chr6:96300845-96300864 MsG0680034890.01.T01:intron 40.0%
TGCAAATGGATCACAAAGGA+AGG - Chr6:96299890-96299909 MsG0680034890.01.T01:exon 40.0%
TGTGATTGGAGTAATGGCTA+TGG - Chr6:96300834-96300853 MsG0680034890.01.T01:intron 40.0%
GCCGTTTCCACAAAGAAATC+AGG - Chr6:96300647-96300666 MsG0680034890.01.T01:intron 45.0%
GGTAGTAGCTTCAGCAACTT+TGG + Chr6:96299840-96299859 None:intergenic 45.0%
GTAATGGCTATGGTTGCACT+AGG - Chr6:96300844-96300863 MsG0680034890.01.T01:intron 45.0%
GTTTGATGAGAAAGTGAGCG+AGG - Chr6:96301019-96301038 MsG0680034890.01.T01:five_prime_UTR 45.0%
!! AAAAAAAAAAAATTATAGTT+GGG - Chr6:96300077-96300096 MsG0680034890.01.T01:CDS 5.0%
!!! TATTTTACTAAATATTATAA+GGG - Chr6:96300190-96300209 MsG0680034890.01.T01:CDS 5.0%
GGTTGCACTAGGGACTTATG+TGG - Chr6:96300855-96300874 MsG0680034890.01.T01:intron 50.0%
Chromosome Type Strat End Strand Name
Chr6 gene 96299744 96301098 96299744 ID=MsG0680034890.01;Name=MsG0680034890.01
Chr6 mRNA 96299744 96301098 96299744 ID=MsG0680034890.01.T01;Parent=MsG0680034890.01;Name=MsG0680034890.01.T01;_AED=0.44;_eAED=0.44;_QI=86|1|1|1|1|1|2|156|165
Chr6 exon 96299744 96300285 96299744 ID=MsG0680034890.01.T01:exon:6807;Parent=MsG0680034890.01.T01
Chr6 exon 96300901 96301098 96300901 ID=MsG0680034890.01.T01:exon:6806;Parent=MsG0680034890.01.T01
Chr6 five_prime_UTR 96301013 96301098 96301013 ID=MsG0680034890.01.T01:five_prime_utr;Parent=MsG0680034890.01.T01
Chr6 CDS 96300901 96301012 96300901 ID=MsG0680034890.01.T01:cds;Parent=MsG0680034890.01.T01
Chr6 CDS 96299900 96300285 96299900 ID=MsG0680034890.01.T01:cds;Parent=MsG0680034890.01.T01
Chr6 three_prime_UTR 96299744 96299899 96299744 ID=MsG0680034890.01.T01:three_prime_utr;Parent=MsG0680034890.01.T01
Gene Sequence

>MsG0680034890.01.T01

ATGGAAACCAAAGTTGCTGAAGCTACTACCAAAAGATTGTATGAAGATTTTGAACCTTACTGCAAATGGATCACAAAGGAAGGACAGAAGATTCTAGAGATTGATTTGAAAGGTTTCAAAAAGGAGCAACTTAAGGTTCAAACTAACGATAAAGGGATCCTAAAAATTTATGGAGAAAGGACTCTTGGTAGTAAGAAATGTAGCCGTTTCCACAAAGAAATCAGGATTTCAAGAGATTGTGATGTGAATGGGATTCAAGCAAAGTTTTCTCAAGGGCTTCTTTCTATCATAATGCCAAAAACTGAAGTAATTCAACATACCAAAGATGCAACCATAGAGAAACATTCATTTTGGGGGGTACATGAGAGAAAAATAACAACAATTCAAATTGTGATTGGAGTAATGGCTATGGTTGCACTAGGGACTTATGTGGCACGAGTTGTAGTAAATAAACAACATCATGATGCATTTGGCAATGTTAATGTTGTGAATGTTTAA

Protein sequence

>MsG0680034890.01.T01

METKVAEATTKRLYEDFEPYCKWITKEGQKILEIDLKGFKKEQLKVQTNDKGILKIYGERTLGSKKCSRFHKEIRISRDCDVNGIQAKFSQGLLSIIMPKTEVIQHTKDATIEKHSFWGVHERKITTIQIVIGVMAMVALGTYVARVVVNKQHHDAFGNVNVVNV*