AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380014411.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380014411.01.T01 MTR_2g013570 99.206 126 1 0 1 126 48 173 1.55e-89 257
MsG0380014411.01.T01 MTR_2g013570 99.200 125 1 0 1 125 48 172 5.61e-87 253
MsG0380014411.01.T01 MTR_2g013570 99.200 125 1 0 1 125 48 172 2.78e-86 253
MsG0380014411.01.T01 MTR_6g007350 91.379 116 10 0 2 117 6 121 6.16e-73 213
MsG0380014411.01.T01 MTR_7g446330 91.379 116 10 0 2 117 22 137 6.29e-73 214
MsG0380014411.01.T01 MTR_4g055260 53.261 92 43 0 32 123 64 155 5.99e-27 104
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380014411.01.T01 AT5G22620 46.296 108 57 1 17 123 31 138 2.08e-27 105
MsG0380014411.01.T01 AT5G22620 46.296 108 57 1 17 123 31 138 2.33e-27 105
MsG0380014411.01.T01 AT5G22620 46.296 108 57 1 17 123 31 138 2.33e-27 105
MsG0380014411.01.T01 AT5G22620 46.296 108 57 1 17 123 31 138 2.33e-27 105
MsG0380014411.01.T01 AT5G22620 46.296 108 57 1 17 123 31 138 2.33e-27 105
MsG0380014411.01.T01 AT5G22620 46.296 108 57 1 17 123 31 138 2.33e-27 105

Find 15 sgRNAs with CRISPR-Local

Find 54 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCAAACTGCTGAAATTATA+TGG 0.326556 3:+54350788 MsG0380014411.01.T01:intron
CTAACCTTGGCATGAGATAT+TGG 0.357117 3:-54350683 None:intergenic
GAATGCAGAAAGTAGGATTC+AGG 0.399022 3:+54349960 MsG0380014411.01.T01:CDS
TTGTCAGTGCTAACTGAAGC+TGG 0.434076 3:+54350593 MsG0380014411.01.T01:CDS
ATATCTCTCTATCACCTTGA+AGG 0.451579 3:+54350856 MsG0380014411.01.T01:CDS
AGAGAGATGCAAGAAAGCTT+TGG 0.489851 3:+54350628 MsG0380014411.01.T01:CDS
GCACTTGGAATGCAGAAAGT+AGG 0.491209 3:+54349953 MsG0380014411.01.T01:CDS
TAAGGCATGGTCTTAGCACT+TGG 0.512686 3:+54349938 MsG0380014411.01.T01:CDS
AGTGAATCAATGTAAACCAA+TGG 0.532237 3:-54350826 None:intergenic
TGTCAGTGCTAACTGAAGCT+GGG 0.541190 3:+54350594 MsG0380014411.01.T01:CDS
ATATTGGACTTGCAAGACAT+TGG 0.570535 3:-54350667 None:intergenic
AGTGCTAACTGAAGCTGGGG+TGG 0.572554 3:+54350598 MsG0380014411.01.T01:CDS
ACTGCTGAAATTATATGGCA+AGG 0.595942 3:+54350793 MsG0380014411.01.T01:CDS
AAGTCCAATATCTCATGCCA+AGG 0.637851 3:+54350679 MsG0380014411.01.T01:CDS
GTCAGTGCTAACTGAAGCTG+GGG 0.646552 3:+54350595 MsG0380014411.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAATCAATTAAGATAATG+AGG - Chr3:54350298-54350317 None:intergenic 15.0%
!! AAAATCAATTAAGATAATGA+GGG - Chr3:54350297-54350316 None:intergenic 15.0%
!! AAATTGATCATATGTGTTTA+GGG + Chr3:54350560-54350579 MsG0380014411.01.T01:intron 20.0%
!! ACAGAAAAATCAATACTATT+TGG - Chr3:54349835-54349854 None:intergenic 20.0%
!! TAAATTGATCATATGTGTTT+AGG + Chr3:54350559-54350578 MsG0380014411.01.T01:intron 20.0%
!! TATGATCAATTTAATGACAA+TGG - Chr3:54350552-54350571 None:intergenic 20.0%
!! TGATAGTCAATTTATTTAAC+TGG + Chr3:54350748-54350767 MsG0380014411.01.T01:intron 20.0%
!!! ATGGTTAAAATAGATTTGTT+TGG + Chr3:54350144-54350163 MsG0380014411.01.T01:intron 20.0%
!!! TCAATTTATTTAACTGGTTT+TGG + Chr3:54350754-54350773 MsG0380014411.01.T01:intron 20.0%
! ACAATTTAAATGATCGATGA+AGG - Chr3:54350506-54350525 None:intergenic 25.0%
!!! AGTATTGATTTTTCTGTAAC+TGG + Chr3:54349838-54349857 MsG0380014411.01.T01:CDS 25.0%
AGCAAACTGCTGAAATTATA+TGG + Chr3:54350788-54350807 MsG0380014411.01.T01:intron 30.0%
AGTGAATCAATGTAAACCAA+TGG - Chr3:54350829-54350848 None:intergenic 30.0%
TCGAGAATTAAATTTCACTG+TGG - Chr3:54350710-54350729 None:intergenic 30.0%
TGGTAAAAGTAGGAGATAAT+GGG - Chr3:54350455-54350474 None:intergenic 30.0%
TTGGTAAAAGTAGGAGATAA+TGG - Chr3:54350456-54350475 None:intergenic 30.0%
! CAAAGAAAGTCACTCTTTTA+AGG + Chr3:54349920-54349939 MsG0380014411.01.T01:CDS 30.0%
! TAGCTCTATTATTGAGTTCA+GGG + Chr3:54350009-54350028 MsG0380014411.01.T01:intron 30.0%
!! ATTGATTTTTCTGTAACTGG+TGG + Chr3:54349841-54349860 MsG0380014411.01.T01:CDS 30.0%
!! TTAGCTCTATTATTGAGTTC+AGG + Chr3:54350008-54350027 MsG0380014411.01.T01:intron 30.0%
!!! AGGTTTTGATTGGTAAAAGT+AGG - Chr3:54350465-54350484 None:intergenic 30.0%
ACTGCTGAAATTATATGGCA+AGG + Chr3:54350793-54350812 MsG0380014411.01.T01:CDS 35.0%
AGCTTACCAAAAACGCTATA+AGG - Chr3:54350215-54350234 None:intergenic 35.0%
ATATCTCTCTATCACCTTGA+AGG + Chr3:54350856-54350875 MsG0380014411.01.T01:CDS 35.0%
ATATTGGACTTGCAAGACAT+TGG - Chr3:54350670-54350689 None:intergenic 35.0%
ATCGATGAAGGATTTCATGA+TGG - Chr3:54350494-54350513 None:intergenic 35.0%
CACCTTGAAGGATTGAAAAA+TGG + Chr3:54350868-54350887 MsG0380014411.01.T01:CDS 35.0%
GCTTATACGCTATAAGATAG+CGG - Chr3:54350120-54350139 None:intergenic 35.0%
TTATAGCGTATAAGCTCGTA+TGG + Chr3:54350125-54350144 MsG0380014411.01.T01:intron 35.0%
!! ATGACAATGGATTGCAAATG+TGG - Chr3:54350539-54350558 None:intergenic 35.0%
!! ATGGAGACATAGGTTTTGAT+TGG - Chr3:54350475-54350494 None:intergenic 35.0%
!! CACCATTTTTCAATCCTTCA+AGG - Chr3:54350873-54350892 None:intergenic 35.0%
!! GGGAGATATTTAACTTGCTT+CGG + Chr3:54350029-54350048 MsG0380014411.01.T01:intron 35.0%
!!! AAAGTCACTCTTTTAAGGCA+TGG + Chr3:54349925-54349944 MsG0380014411.01.T01:CDS 35.0%
AAGTCCAATATCTCATGCCA+AGG + Chr3:54350679-54350698 MsG0380014411.01.T01:CDS 40.0%
AGAGAGATGCAAGAAAGCTT+TGG + Chr3:54350628-54350647 MsG0380014411.01.T01:CDS 40.0%
AGCTAGCTGATGACATATAG+CGG - Chr3:54350430-54350449 None:intergenic 40.0%
CAATATCTCATGCCAAGGTT+AGG + Chr3:54350684-54350703 MsG0380014411.01.T01:intron 40.0%
CCAAAAACGCTATAAGGTAG+TGG - Chr3:54350209-54350228 None:intergenic 40.0%
CTAACCTTGGCATGAGATAT+TGG - Chr3:54350686-54350705 None:intergenic 40.0%
GAATGCAGAAAGTAGGATTC+AGG + Chr3:54349960-54349979 MsG0380014411.01.T01:CDS 40.0%
GCAAGGAAGAGAAAAACCAT+TGG + Chr3:54350810-54350829 MsG0380014411.01.T01:CDS 40.0%
TTTGTATTACCGTTCTTGCG+TGG + Chr3:54350074-54350093 MsG0380014411.01.T01:intron 40.0%
! CCACTACCTTATAGCGTTTT+TGG + Chr3:54350206-54350225 MsG0380014411.01.T01:intron 40.0%
! GGATTTCATGATGGAGACAT+AGG - Chr3:54350485-54350504 None:intergenic 40.0%
ATTTCACTGTGGCCTAACCT+TGG - Chr3:54350699-54350718 None:intergenic 45.0%
GCACTTGGAATGCAGAAAGT+AGG + Chr3:54349953-54349972 MsG0380014411.01.T01:CDS 45.0%
TGTCAGTGCTAACTGAAGCT+GGG + Chr3:54350594-54350613 MsG0380014411.01.T01:CDS 45.0%
TTGTCAGTGCTAACTGAAGC+TGG + Chr3:54350593-54350612 MsG0380014411.01.T01:CDS 45.0%
! CATTTAGAGCCACGCAAGAA+CGG - Chr3:54350086-54350105 None:intergenic 45.0%
! TAAGGCATGGTCTTAGCACT+TGG + Chr3:54349938-54349957 MsG0380014411.01.T01:CDS 45.0%
!! TTGCGTGGCTCTAAATGACA+AGG + Chr3:54350089-54350108 MsG0380014411.01.T01:intron 45.0%
GTCAGTGCTAACTGAAGCTG+GGG + Chr3:54350595-54350614 MsG0380014411.01.T01:CDS 50.0%
AGTGCTAACTGAAGCTGGGG+TGG + Chr3:54350598-54350617 MsG0380014411.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr3 gene 54349826 54350915 54349826 ID=MsG0380014411.01;Name=MsG0380014411.01
Chr3 mRNA 54349826 54350915 54349826 ID=MsG0380014411.01.T01;Parent=MsG0380014411.01;Name=MsG0380014411.01.T01;_AED=0.08;_eAED=0.08;_QI=0|0|0|1|0.5|0.66|3|0|133
Chr3 exon 54349826 54349981 54349826 ID=MsG0380014411.01.T01:exon:10925;Parent=MsG0380014411.01.T01
Chr3 exon 54350581 54350700 54350581 ID=MsG0380014411.01.T01:exon:10926;Parent=MsG0380014411.01.T01
Chr3 exon 54350790 54350915 54350790 ID=MsG0380014411.01.T01:exon:10927;Parent=MsG0380014411.01.T01
Chr3 CDS 54349826 54349981 54349826 ID=MsG0380014411.01.T01:cds;Parent=MsG0380014411.01.T01
Chr3 CDS 54350581 54350700 54350581 ID=MsG0380014411.01.T01:cds;Parent=MsG0380014411.01.T01
Chr3 CDS 54350790 54350915 54350790 ID=MsG0380014411.01.T01:cds;Parent=MsG0380014411.01.T01
Gene Sequence

>MsG0380014411.01.T01

AAACTTCCAAATAGTATTGATTTTTCTGTAACTGGTGGTGCATATGATTTCACAAAAGCAACAACATCACTAACAAATGAGTTAATCACTTCATCAAAGAAAGTCACTCTTTTAAGGCATGGTCTTAGCACTTGGAATGCAGAAAGTAGGATTCAGGGAAGCTCAGATTTGTCAGTGCTAACTGAAGCTGGGGTGGAGCAAGCAGAGAGATGCAAGAAAGCTTTGGAAAATATTCACTTTGACCAATGTCTTGCAAGTCCAATATCTCATGCCAAGCAAACTGCTGAAATTATATGGCAAGGAAGAGAAAAACCATTGGTTTACATTGATTCACTTAAAGAAATATCTCTCTATCACCTTGAAGGATTGAAAAATGGTGAGCCTATCTCTGCTCAACTTTAA

Protein sequence

>MsG0380014411.01.T01

KLPNSIDFSVTGGAYDFTKATTSLTNELITSSKKVTLLRHGLSTWNAESRIQGSSDLSVLTEAGVEQAERCKKALENIHFDQCLASPISHAKQTAEIIWQGREKPLVYIDSLKEISLYHLEGLKNGEPISAQL*