AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480022772.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480022772.01.T01 MTR_4g094622 98.305 59 1 0 18 76 94 152 1.76e-36 120
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480022772.01.T01 AT2G34450 71.186 59 17 0 18 76 93 151 1.17e-24 90.1
MsG0480022772.01.T01 AT2G34450 71.186 59 17 0 18 76 93 151 1.17e-24 90.1
MsG0480022772.01.T01 AT2G34450 71.186 59 17 0 18 76 93 151 1.17e-24 90.1
MsG0480022772.01.T01 AT2G34450 70.000 60 18 0 17 76 93 152 3.07e-24 89.0

Find 9 sgRNAs with CRISPR-Local

Find 99 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCAAATTCTGCACGTTTCT+CGG 0.263566 4:-76522149 None:intergenic
GACAGAGTATAACAAGAAAA+TGG 0.358050 4:+76522180 MsG0480022772.01.T01:CDS
GCAAGGCATGTGGAGAGAAG+TGG 0.571530 4:+76521098 MsG0480022772.01.T01:CDS
CGTGTTCATACAGATTGGCA+AGG 0.572075 4:+76521081 MsG0480022772.01.T01:intron
GACTTGGAGGAATGGTGCAG+AGG 0.588353 4:+76520436 MsG0480022772.01.T01:CDS
TCTGATGCTTTGCAGGAAAG+CGG 0.595152 4:+76522275 MsG0480022772.01.T01:intron
ATACAGATTGGCAAGGCATG+TGG 0.602187 4:+76521088 MsG0480022772.01.T01:intron
CGAATATGAAGAAACTGATG+AGG 0.603289 4:+76522298 MsG0480022772.01.T01:CDS
TTGGAGGAATGGTGCAGAGG+AGG 0.603596 4:+76520439 MsG0480022772.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATAAAAAAATTAAAGTAAAG+GGG + Chr4:76521824-76521843 MsG0480022772.01.T01:intron 10.0%
!! ATAAATTAAGTTTCAAAAAT+TGG + Chr4:76521230-76521249 MsG0480022772.01.T01:intron 10.0%
!! ATAAATTATGTTTCAAAAAT+TGG + Chr4:76521305-76521324 MsG0480022772.01.T01:intron 10.0%
!! TTGTTATATTTGAAAAAAAT+TGG + Chr4:76521462-76521481 MsG0480022772.01.T01:intron 10.0%
!!! CGATTTTTATGTTTAATTAT+TGG + Chr4:76521667-76521686 MsG0480022772.01.T01:intron 15.0%
!! ACTACTATTTACAGTATATT+TGG + Chr4:76520626-76520645 MsG0480022772.01.T01:intron 20.0%
!! AGATCAAATTGAACATAATA+TGG - Chr4:76522041-76522060 None:intergenic 20.0%
!! TCTCAAAAACATAAAATAAC+TGG - Chr4:76520980-76520999 None:intergenic 20.0%
!! TTATGTTTAATTATTGGTGT+TGG + Chr4:76521673-76521692 MsG0480022772.01.T01:intron 20.0%
!! TTTGAAAAAAATTGGAAAGT+TGG + Chr4:76521470-76521489 MsG0480022772.01.T01:intron 20.0%
!!! AAACTAGTTCTATATTGATT+TGG - Chr4:76521970-76521989 None:intergenic 20.0%
!!! AACAATTGCTTCTTTTTATA+TGG + Chr4:76520689-76520708 MsG0480022772.01.T01:intron 20.0%
!!! ATAACTGGCAATTTTTAAAA+TGG - Chr4:76520965-76520984 None:intergenic 20.0%
! AATAAGACATAGTAGAAACA+AGG - Chr4:76520589-76520608 None:intergenic 25.0%
! ATTATAAAGACACGTAAACT+GGG - Chr4:76521789-76521808 None:intergenic 25.0%
! TAACAAAAATTGTATCTGAC+AGG + Chr4:76522099-76522118 MsG0480022772.01.T01:intron 25.0%
! TAGACGAAATATTAATACGA+CGG - Chr4:76520844-76520863 None:intergenic 25.0%
!! AATTCAGGTTAAATATGCAA+GGG - Chr4:76521164-76521183 None:intergenic 25.0%
!! ATAAACAATGATGATGATGA+TGG - Chr4:76521015-76521034 None:intergenic 25.0%
!! GAATTTTGTCAAAACTGTTT+AGG + Chr4:76521334-76521353 MsG0480022772.01.T01:intron 25.0%
!! TAACCTGAATTGTGTTATTA+TGG + Chr4:76521173-76521192 MsG0480022772.01.T01:intron 25.0%
!!! AACTGTTTAGGTTTTTAATG+TGG + Chr4:76521346-76521365 MsG0480022772.01.T01:intron 25.0%
!!! AAGTTCTTTTTCATTCTGAA+GGG + Chr4:76520749-76520768 MsG0480022772.01.T01:intron 25.0%
!!! ATCAGTTTTTTGACTCATTT+AGG + Chr4:76521625-76521644 MsG0480022772.01.T01:intron 25.0%
!!! TCAGTTTTTTGACTCATTTA+GGG + Chr4:76521626-76521645 MsG0480022772.01.T01:intron 25.0%
AAAACATGTTTGAAGATGAG+TGG - Chr4:76520522-76520541 None:intergenic 30.0%
ATTAACACGAGTACATTTGT+AGG + Chr4:76521700-76521719 MsG0480022772.01.T01:intron 30.0%
CAACCATAATAACACAATTC+AGG - Chr4:76521179-76521198 None:intergenic 30.0%
CTTCAAATTACTGTGTTTAC+TGG + Chr4:76520726-76520745 MsG0480022772.01.T01:intron 30.0%
GACAGAGTATAACAAGAAAA+TGG + Chr4:76522180-76522199 MsG0480022772.01.T01:CDS 30.0%
GATTATAAAGACACGTAAAC+TGG - Chr4:76521790-76521809 None:intergenic 30.0%
GCTAATTGCTAATCAACAAA+TGG - Chr4:76520468-76520487 None:intergenic 30.0%
TAACCTATCTGTCATATTCA+TGG + Chr4:76522203-76522222 MsG0480022772.01.T01:intron 30.0%
TGTAAAACAAAGTTGCTTCA+GGG - Chr4:76520890-76520909 None:intergenic 30.0%
TTACAGTATATTTGGCATTG+TGG + Chr4:76520634-76520653 MsG0480022772.01.T01:intron 30.0%
TTGTAAAACAAAGTTGCTTC+AGG - Chr4:76520891-76520910 None:intergenic 30.0%
! ATGTTTCAAAAATTGGCTCA+GGG + Chr4:76521312-76521331 MsG0480022772.01.T01:intron 30.0%
! ATTTGGAATAAATAGCAGCA+CGG - Chr4:76521953-76521972 None:intergenic 30.0%
! CAATTCAGGTTAAATATGCA+AGG - Chr4:76521165-76521184 None:intergenic 30.0%
! TATGTTTCAAAAATTGGCTC+AGG + Chr4:76521311-76521330 MsG0480022772.01.T01:intron 30.0%
!! GAAGTTCTTTTTCATTCTGA+AGG + Chr4:76520748-76520767 MsG0480022772.01.T01:intron 30.0%
!! TGGATGGTATTTTAGAAAAC+TGG - Chr4:76521857-76521876 None:intergenic 30.0%
!! TTCTAAAATACCATCCATTG+TGG + Chr4:76521860-76521879 MsG0480022772.01.T01:intron 30.0%
!!! GTATTTTACGGATTTTGACT+TGG + Chr4:76520420-76520439 MsG0480022772.01.T01:CDS 30.0%
AAGAAGTCATGATCAAGACA+TGG - Chr4:76521393-76521412 None:intergenic 35.0%
ATAGTAGTATGATTGAGCAG+AGG - Chr4:76520614-76520633 None:intergenic 35.0%
ATCAAATTCTGCACGTTTCT+CGG - Chr4:76522152-76522171 None:intergenic 35.0%
CCATTGTCAGGAATTTAAAC+AGG - Chr4:76522006-76522025 None:intergenic 35.0%
CCTGTTTAAATTCCTGACAA+TGG + Chr4:76522003-76522022 MsG0480022772.01.T01:intron 35.0%
CGAATATGAAGAAACTGATG+AGG + Chr4:76522298-76522317 MsG0480022772.01.T01:CDS 35.0%
GACATAGTAGAAACAAGGAA+AGG - Chr4:76520584-76520603 None:intergenic 35.0%
GTAAAACAAAGTTGCTTCAG+GGG - Chr4:76520889-76520908 None:intergenic 35.0%
TAGCCATGAATATGACAGAT+AGG - Chr4:76522209-76522228 None:intergenic 35.0%
TCAATTTGATCTGAGCAAGA+AGG + Chr4:76522049-76522068 MsG0480022772.01.T01:intron 35.0%
TGGAAAGTTGGAATTCATTG+CGG + Chr4:76521482-76521501 MsG0480022772.01.T01:intron 35.0%
TTGTCAGTTGTGATGTTTGA+CGG + Chr4:76521264-76521283 MsG0480022772.01.T01:intron 35.0%
! CTAGTGAACTGACTCTTATT+TGG + Chr4:76522226-76522245 MsG0480022772.01.T01:intron 35.0%
! GTGGAAAACAATGACTTTTG+AGG + Chr4:76521117-76521136 MsG0480022772.01.T01:CDS 35.0%
! TGGGGTTCTGTTGTATTTTA+CGG + Chr4:76520408-76520427 MsG0480022772.01.T01:CDS 35.0%
!! TTCTTTTTCATTCTGAAGGG+AGG + Chr4:76520752-76520771 MsG0480022772.01.T01:intron 35.0%
!! TTTGTTTTCTGATGCTTTGC+AGG + Chr4:76522268-76522287 MsG0480022772.01.T01:intron 35.0%
!!! TTTTACGGATTTTGACTTGG+AGG + Chr4:76520423-76520442 MsG0480022772.01.T01:CDS 35.0%
AACATAGAGCTCAACCAAAG+CGG - Chr4:76522080-76522099 None:intergenic 40.0%
AGCAGAACTGAAGATCACTT+TGG + Chr4:76521507-76521526 MsG0480022772.01.T01:intron 40.0%
AGGTAAGTTTCCACAATGGA+TGG - Chr4:76521873-76521892 None:intergenic 40.0%
ATACTTGACACTCCATTGTC+AGG - Chr4:76522018-76522037 None:intergenic 40.0%
ATCCATTGTGGAAACTTACC+TGG + Chr4:76521872-76521891 MsG0480022772.01.T01:intron 40.0%
CAATCTGTATGAACACGGAA+AGG - Chr4:76521078-76521097 None:intergenic 40.0%
CTTGCCAATCTGTATGAACA+CGG - Chr4:76521083-76521102 None:intergenic 40.0%
CTTTCCGTGTTCATACAGAT+TGG + Chr4:76521076-76521095 MsG0480022772.01.T01:intron 40.0%
TCCATTGTGGAAACTTACCT+GGG + Chr4:76521873-76521892 MsG0480022772.01.T01:intron 40.0%
!! CATTCTGAAGGGAGGATTTT+CGG + Chr4:76520760-76520779 MsG0480022772.01.T01:intron 40.0%
!! TCACGCATTGACTTAACATC+TGG - Chr4:76520807-76520826 None:intergenic 40.0%
ATACAGATTGGCAAGGCATG+TGG + Chr4:76521088-76521107 MsG0480022772.01.T01:intron 45.0%
CGTGTTCATACAGATTGGCA+AGG + Chr4:76521081-76521100 MsG0480022772.01.T01:intron 45.0%
GTCTCAGCTCTTGAACTTGA+GGG - Chr4:76520497-76520516 None:intergenic 45.0%
TCCCAGGTAAGTTTCCACAA+TGG - Chr4:76521877-76521896 None:intergenic 45.0%
TCTCAGCTCTTGAACTTGAG+GGG - Chr4:76520496-76520515 None:intergenic 45.0%
TCTGATGCTTTGCAGGAAAG+CGG + Chr4:76522275-76522294 MsG0480022772.01.T01:intron 45.0%
TCTGTATGAACACGGAAAGG+AGG - Chr4:76521075-76521094 None:intergenic 45.0%
TGGAAACTTACCTGGGACTA+AGG + Chr4:76521880-76521899 MsG0480022772.01.T01:intron 45.0%
TGTCTCAGCTCTTGAACTTG+AGG - Chr4:76520498-76520517 None:intergenic 45.0%
!!! CGGATTTTGACTTGGAGGAA+TGG + Chr4:76520428-76520447 MsG0480022772.01.T01:CDS 45.0%
!! AAATAAAAAAATTAAAGTAA+AGG + Chr4:76521822-76521841 MsG0480022772.01.T01:intron 5.0%
!! AATAAAAAAATTAAAGTAAA+GGG + Chr4:76521823-76521842 MsG0480022772.01.T01:intron 5.0%
AACTGATGATCATGCCAGCC+TGG - Chr4:76521612-76521631 None:intergenic 50.0%
AGCTTCTTCTCGATAGCAGC+AGG - Chr4:76521916-76521935 None:intergenic 50.0%
CACGTAAACTGGGTGCTCTA+AGG - Chr4:76521779-76521798 None:intergenic 50.0%
CTCAGCTCTTGAACTTGAGG+GGG - Chr4:76520495-76520514 None:intergenic 50.0%
GCAAGAAGGAAACACCGCTT+TGG + Chr4:76522063-76522082 MsG0480022772.01.T01:intron 50.0%
TCTCCTCTGGTTGGAATTCC+AGG + Chr4:76521591-76521610 MsG0480022772.01.T01:intron 50.0%
AGTCGCAGAACTGTCTCCTC+TGG + Chr4:76521578-76521597 MsG0480022772.01.T01:intron 55.0%
CAGCCTGGAATTCCAACCAG+AGG - Chr4:76521597-76521616 None:intergenic 55.0%
CTCTGGTTGGAATTCCAGGC+TGG + Chr4:76521595-76521614 MsG0480022772.01.T01:intron 55.0%
CTTTCACGTGCCTTAGTCCC+AGG - Chr4:76521893-76521912 None:intergenic 55.0%
GACTTGGAGGAATGGTGCAG+AGG + Chr4:76520436-76520455 MsG0480022772.01.T01:CDS 55.0%
GCAAGGCATGTGGAGAGAAG+TGG + Chr4:76521098-76521117 MsG0480022772.01.T01:CDS 55.0%
GCAGAACTGTCTCCTCTGGT+TGG + Chr4:76521582-76521601 MsG0480022772.01.T01:intron 55.0%
TTGGAGGAATGGTGCAGAGG+AGG + Chr4:76520439-76520458 MsG0480022772.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr4 gene 76520407 76522340 76520407 ID=MsG0480022772.01;Name=MsG0480022772.01
Chr4 mRNA 76520407 76522340 76520407 ID=MsG0480022772.01.T01;Parent=MsG0480022772.01;Name=MsG0480022772.01.T01;_AED=0.50;_eAED=0.62;_QI=0|0|0|1|1|1|4|0|76
Chr4 exon 76520407 76520460 76520407 ID=MsG0480022772.01.T01:exon:23322;Parent=MsG0480022772.01.T01
Chr4 exon 76521094 76521138 76521094 ID=MsG0480022772.01.T01:exon:23323;Parent=MsG0480022772.01.T01
Chr4 exon 76522121 76522201 76522121 ID=MsG0480022772.01.T01:exon:23324;Parent=MsG0480022772.01.T01
Chr4 exon 76522290 76522340 76522290 ID=MsG0480022772.01.T01:exon:23325;Parent=MsG0480022772.01.T01
Chr4 CDS 76520407 76520460 76520407 ID=MsG0480022772.01.T01:cds;Parent=MsG0480022772.01.T01
Chr4 CDS 76521094 76521138 76521094 ID=MsG0480022772.01.T01:cds;Parent=MsG0480022772.01.T01
Chr4 CDS 76522121 76522201 76522121 ID=MsG0480022772.01.T01:cds;Parent=MsG0480022772.01.T01
Chr4 CDS 76522290 76522340 76522290 ID=MsG0480022772.01.T01:cds;Parent=MsG0480022772.01.T01
Gene Sequence

>MsG0480022772.01.T01

ATGGGGTTCTGTTGTATTTTACGGATTTTGACTTGGAGGAATGGTGCAGAGGAGATTGGCAAGGCATGTGGAGAGAAGTGGAAAACAATGACTTTTGAGGAGAAAGTTCAATACTATGATATAGCAACCGAGAAACGTGCAGAATTTGATAGAGCAACGACAGAGTATAACAAGAAAATGGAAAGCGGCGAATATGAAGAAACTGATGAGGAGTCAGAGTATGACGAGTAA
Protein sequence

>MsG0480022772.01.T01

MGFCCILRILTWRNGAEEIGKACGEKWKTMTFEEKVQYYDIATEKRAEFDRATTEYNKKMESGEYEETDEESEYDE*