AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380017566.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380017566.01.T01 MTR_3g109170 78.400 125 13 2 31 149 1 117 2.50e-58 177
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380017566.01.T01 AT2G24395 56.122 98 41 2 49 146 32 127 6.51e-33 113

Find 38 sgRNAs with CRISPR-Local

Find 44 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAATTAATTCAATTCAATTA+AGG 0.241453 3:-97944350 MsG0380017566.01.T01:exon
ATTGAATTGAATTAATTAAT+AGG 0.255490 3:+97944355 None:intergenic
GCAATAACGTACGGCTTTGC+AGG 0.340106 3:+97944548 None:intergenic
CGACGGTAGATACGGTTGTT+AGG 0.341305 3:+97944579 None:intergenic
CCTACGACTGTGTCTGTAAC+TGG 0.344862 3:+97944770 None:intergenic
GGAGGAGAGAAGAGGATTAA+TGG 0.361525 3:-97944835 MsG0380017566.01.T01:CDS
TGTCTTCTCGTTCACTCAAC+TGG 0.419602 3:-97944871 MsG0380017566.01.T01:CDS
ATAGGAGAATCATTGAAATC+AGG 0.441700 3:+97944373 None:intergenic
GACGGTAGATACGGTTGTTA+GGG 0.453240 3:+97944580 None:intergenic
GAAGGGAGGGTGAGAATAAA+CGG 0.455974 3:+97944798 None:intergenic
GAAGTTGTTGGTAAATGATA+AGG 0.465929 3:-97944920 None:intergenic
AAGGACATCGACGGTAGATA+CGG 0.523630 3:+97944571 None:intergenic
TGCAAACCTTGCAATGGAAA+AGG 0.530933 3:-97944651 MsG0380017566.01.T01:CDS
TACAGACACAGTCGTAGGCT+TGG 0.536423 3:-97944765 MsG0380017566.01.T01:CDS
TCAAGTGAGCAGTTAAATGA+AGG 0.542638 3:+97944206 None:intergenic
GATAAGGAGGAGAAGAAATG+AGG 0.556274 3:-97944904 MsG0380017566.01.T01:CDS
GTTGTTGGTAAATGATAAGG+AGG 0.569521 3:-97944917 None:intergenic
ATCATGTGCAAACCTTGCAA+TGG 0.569752 3:-97944657 MsG0380017566.01.T01:CDS
TTGCAATGGAAAAGGATGGT+TGG 0.588776 3:-97944643 MsG0380017566.01.T01:CDS
GTAACTGGAAATTGAAGGGA+GGG 0.598428 3:+97944785 None:intergenic
TAACGTACGGCTTTGCAGGA+AGG 0.607566 3:+97944552 None:intergenic
TGTCTGTAACTGGAAATTGA+AGG 0.607601 3:+97944780 None:intergenic
CCTCTTCTCTCCTCCCACGA+TGG 0.612788 3:+97944843 None:intergenic
GTATTCTACTCTACATACAT+TGG 0.617882 3:+97944232 None:intergenic
CTCAACTGGTCGATCCATCG+TGG 0.625635 3:-97944857 MsG0380017566.01.T01:CDS
CCATCGTGGGAGGAGAGAAG+AGG 0.627180 3:-97944843 MsG0380017566.01.T01:CDS
GTCTGTAACTGGAAATTGAA+GGG 0.632329 3:+97944781 None:intergenic
CACGCATGCATGTGATTGTG+AGG 0.632978 3:+97944303 None:intergenic
CCAGTTACAGACACAGTCGT+AGG 0.638479 3:-97944770 MsG0380017566.01.T01:CDS
TCAACTGGTCGATCCATCGT+GGG 0.645410 3:-97944856 MsG0380017566.01.T01:CDS
ACTGGTCGATCCATCGTGGG+AGG 0.649205 3:-97944853 MsG0380017566.01.T01:CDS
ACGGTAGATACGGTTGTTAG+GGG 0.651272 3:+97944581 None:intergenic
TGTGTTGTGTTCAAACTGCA+AGG 0.652118 3:-97944416 MsG0380017566.01.T01:CDS
CATCACGATAAAGTGTGTGA+AGG 0.657024 3:-97944724 MsG0380017566.01.T01:CDS
AACCTTGCAATGGAAAAGGA+TGG 0.665276 3:-97944647 MsG0380017566.01.T01:CDS
CTTTGCAGGAAGGACATCGA+CGG 0.718197 3:+97944562 None:intergenic
ACGCATGCATGTGATTGTGA+GGG 0.722659 3:+97944304 None:intergenic
TGTAACTGGAAATTGAAGGG+AGG 0.723775 3:+97944784 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTGAATTGAATTAATTAAT+AGG + Chr3:97944719-97944738 None:intergenic 10.0%
!! TAATTAATTCAATTCAATTA+AGG - Chr3:97944721-97944740 MsG0380017566.01.T01:CDS 10.0%
!! AAGAAAGAAAGAAAAAAAAA+AGG - Chr3:97944809-97944828 MsG0380017566.01.T01:CDS 15.0%
!! AATATATATATAATTGTTGC+AGG - Chr3:97944625-97944644 MsG0380017566.01.T01:CDS 15.0%
!! AAAGAAAGAAAAAAAAAAGG+TGG - Chr3:97944812-97944831 MsG0380017566.01.T01:CDS 20.0%
! ATGATATTAGCAATAACGTA+CGG + Chr3:97944535-97944554 None:intergenic 25.0%
! TATATATAATTGTTGCAGGT+TGG - Chr3:97944629-97944648 MsG0380017566.01.T01:CDS 25.0%
ATAGGAGAATCATTGAAATC+AGG + Chr3:97944701-97944720 None:intergenic 30.0%
GTATTCTACTCTACATACAT+TGG + Chr3:97944842-97944861 None:intergenic 30.0%
GTCTGTAACTGGAAATTGAA+GGG + Chr3:97944293-97944312 None:intergenic 35.0%
TCAAGTGAGCAGTTAAATGA+AGG + Chr3:97944868-97944887 None:intergenic 35.0%
TGTCTGTAACTGGAAATTGA+AGG + Chr3:97944294-97944313 None:intergenic 35.0%
! TTGGTATGTGACTTTTGTGA+AGG - Chr3:97944447-97944466 MsG0380017566.01.T01:intron 35.0%
!!! GGGCTTTGACATTAGTTTTT+TGG + Chr3:97944473-97944492 None:intergenic 35.0%
AACCTTGCAATGGAAAAGGA+TGG - Chr3:97944424-97944443 MsG0380017566.01.T01:CDS 40.0%
ATCATGTGCAAACCTTGCAA+TGG - Chr3:97944414-97944433 MsG0380017566.01.T01:CDS 40.0%
CATCACGATAAAGTGTGTGA+AGG - Chr3:97944347-97944366 MsG0380017566.01.T01:exon 40.0%
GATAAGGAGGAGAAGAAATG+AGG - Chr3:97944167-97944186 MsG0380017566.01.T01:three_prime_UTR 40.0%
GTAACTGGAAATTGAAGGGA+GGG + Chr3:97944289-97944308 None:intergenic 40.0%
TGCAAACCTTGCAATGGAAA+AGG - Chr3:97944420-97944439 MsG0380017566.01.T01:CDS 40.0%
TGTAACTGGAAATTGAAGGG+AGG + Chr3:97944290-97944309 None:intergenic 40.0%
TGTGTTGTGTTCAAACTGCA+AGG - Chr3:97944655-97944674 MsG0380017566.01.T01:CDS 40.0%
TTGCAATGGAAAAGGATGGT+TGG - Chr3:97944428-97944447 MsG0380017566.01.T01:intron 40.0%
! AACCATCCTTTTCCATTGCA+AGG + Chr3:97944429-97944448 None:intergenic 40.0%
AAGGACATCGACGGTAGATA+CGG + Chr3:97944503-97944522 None:intergenic 45.0%
ACGCATGCATGTGATTGTGA+GGG + Chr3:97944770-97944789 None:intergenic 45.0%
ACGGTAGATACGGTTGTTAG+GGG + Chr3:97944493-97944512 None:intergenic 45.0%
GAAGGGAGGGTGAGAATAAA+CGG + Chr3:97944276-97944295 None:intergenic 45.0%
GACGGTAGATACGGTTGTTA+GGG + Chr3:97944494-97944513 None:intergenic 45.0%
GGAGGAGAGAAGAGGATTAA+TGG - Chr3:97944236-97944255 MsG0380017566.01.T01:three_prime_UTR 45.0%
TGTCTTCTCGTTCACTCAAC+TGG - Chr3:97944200-97944219 MsG0380017566.01.T01:three_prime_UTR 45.0%
CACGCATGCATGTGATTGTG+AGG + Chr3:97944771-97944790 None:intergenic 50.0%
CCAGTTACAGACACAGTCGT+AGG - Chr3:97944301-97944320 MsG0380017566.01.T01:three_prime_UTR 50.0%
CCTACGACTGTGTCTGTAAC+TGG + Chr3:97944304-97944323 None:intergenic 50.0%
CGACGGTAGATACGGTTGTT+AGG + Chr3:97944495-97944514 None:intergenic 50.0%
CTTTGCAGGAAGGACATCGA+CGG + Chr3:97944512-97944531 None:intergenic 50.0%
GCAATAACGTACGGCTTTGC+AGG + Chr3:97944526-97944545 None:intergenic 50.0%
TAACGTACGGCTTTGCAGGA+AGG + Chr3:97944522-97944541 None:intergenic 50.0%
TACAGACACAGTCGTAGGCT+TGG - Chr3:97944306-97944325 MsG0380017566.01.T01:three_prime_UTR 50.0%
TCAACTGGTCGATCCATCGT+GGG - Chr3:97944215-97944234 MsG0380017566.01.T01:three_prime_UTR 50.0%
CTCAACTGGTCGATCCATCG+TGG - Chr3:97944214-97944233 MsG0380017566.01.T01:three_prime_UTR 55.0%
ACTGGTCGATCCATCGTGGG+AGG - Chr3:97944218-97944237 MsG0380017566.01.T01:three_prime_UTR 60.0%
CCATCGTGGGAGGAGAGAAG+AGG - Chr3:97944228-97944247 MsG0380017566.01.T01:three_prime_UTR 60.0%
CCTCTTCTCTCCTCCCACGA+TGG + Chr3:97944231-97944250 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr3 gene 97944165 97944928 97944165 ID=MsG0380017566.01;Name=MsG0380017566.01
Chr3 mRNA 97944165 97944928 97944165 ID=MsG0380017566.01.T01;Parent=MsG0380017566.01;Name=MsG0380017566.01.T01;_AED=0.39;_eAED=0.46;_QI=0|1|0.5|1|0|0|2|201|149
Chr3 exon 97944165 97944446 97944165 ID=MsG0380017566.01.T01:exon:25851;Parent=MsG0380017566.01.T01
Chr3 exon 97944560 97944928 97944560 ID=MsG0380017566.01.T01:exon:25850;Parent=MsG0380017566.01.T01
Chr3 CDS 97944560 97944928 97944560 ID=MsG0380017566.01.T01:cds;Parent=MsG0380017566.01.T01
Chr3 CDS 97944366 97944446 97944366 ID=MsG0380017566.01.T01:cds;Parent=MsG0380017566.01.T01
Chr3 three_prime_UTR 97944165 97944365 97944165 ID=MsG0380017566.01.T01:three_prime_utr;Parent=MsG0380017566.01.T01
Gene Sequence

>MsG0380017566.01.T01

ATGATAAGGAGGAGAAGAAATGAGGAAGAACATCATGTCTTCTCGTTCACTCAACTGGTCGATCCATCGTGGGAGGAGAGAAGAGGATTAATGGCTGTTGCATTAACACCGTTTATTCTCACCCTCCCTTCAATTTCCAGTTACAGACACAGTCGTAGGCTTGGTATTGTTCATATTCGCAGCATCACGATAAAGTGTGTGAAGGTGAATACAGATACAGATACAGATACTGAATCATCAGCAACAAATATCATGTGCAAACCTTGCAATGGAAAAGGATGGTTGGTATGTGACTTTTGTGAAGGCCAAAAAACTAATGTCAAAGCCCCTAACAACCGTATCTACCGTCGATGTCCTTCCTGCAAAGCCGTTGGATATGTGTTGTGTTCAAACTGCAAGGTCTTCAAATGTGTCACTTTTCCTGATTTCAATGATTCTCCTATTAATTAA

Protein sequence

>MsG0380017566.01.T01

MIRRRRNEEEHHVFSFTQLVDPSWEERRGLMAVALTPFILTLPSISSYRHSRRLGIVHIRSITIKCVKVNTDTDTDTESSATNIMCKPCNGKGWLVCDFCEGQKTNVKAPNNRIYRRCPSCKAVGYVLCSNCKVFKCVTFPDFNDSPIN*