AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380016241.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380016241.01.T01 MTR_3g086230 98.985 197 1 1 1 196 1 197 5.58e-138 384
MsG0380016241.01.T01 MTR_8g089610 65.686 204 57 9 1 194 1 201 4.52e-63 194
MsG0380016241.01.T01 MTR_2g046810 50.980 153 44 10 8 151 1 131 1.05e-23 92.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380016241.01.T01 AT1G67740 51.579 190 74 5 12 195 10 187 2.08e-44 146

Find 55 sgRNAs with CRISPR-Local

Find 57 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGATTGTTGGGCTTGGGCT+TGG 0.228539 3:-80846524 MsG0380016241.01.T01:CDS
GTTGGGCTTGGGCTTGGACT+TGG 0.294640 3:-80846518 MsG0380016241.01.T01:CDS
TGACACAAAGTTGGTGTTCT+TGG 0.338685 3:+80846754 None:intergenic
GGGCTTGGGCTTGGACTTGG+TGG 0.341015 3:-80846515 MsG0380016241.01.T01:CDS
AGGGTGTGATTGTTGGGCTT+GGG 0.349503 3:-80846529 MsG0380016241.01.T01:CDS
AAGGGTGTGATTGTTGGGCT+TGG 0.354280 3:-80846530 MsG0380016241.01.T01:CDS
TCACCTTCACTTGCAATTGC+AGG 0.361555 3:-80846734 MsG0380016241.01.T01:CDS
CGTTACGCATACGGTTGATT+TGG 0.394692 3:+80846555 None:intergenic
CACCCTTTGCGTTACGCATA+CGG 0.394720 3:+80846546 None:intergenic
TTTGTTGTTGCACCAGCTAT+AGG 0.399173 3:-80846614 MsG0380016241.01.T01:CDS
GAAGCATCTGCTAGTGAGAT+TGG 0.403127 3:-80846467 MsG0380016241.01.T01:CDS
ACTTGGGTAGGCCTGTGTTT+AGG 0.404849 3:+80846861 None:intergenic
ACGCAAAGGGTGTGATTGTT+GGG 0.407027 3:-80846535 MsG0380016241.01.T01:CDS
GGCTTGGGCTTGGACTTGGT+GGG 0.408875 3:-80846514 MsG0380016241.01.T01:CDS
ATGCTGCTGGAAGTGACAAC+AGG 0.409635 3:-80846433 MsG0380016241.01.T01:CDS
CTGCTCTCAACCAGATCAAC+AGG 0.411872 3:-80846346 MsG0380016241.01.T01:CDS
CTGATCTCATCCTGTTGATC+TGG 0.417117 3:+80846336 None:intergenic
CTTGGTGGGCTTGCTGCCTC+AGG 0.425122 3:-80846500 MsG0380016241.01.T01:CDS
TTGTTGCACCAGCTATCCTT+TGG 0.431369 3:-80846391 MsG0380016241.01.T01:CDS
TGTTGCACCAGCTATCCTTT+GGG 0.438183 3:-80846390 MsG0380016241.01.T01:CDS
AACCGTATGCGTAACGCAAA+GGG 0.446661 3:-80846548 MsG0380016241.01.T01:CDS
AACGCAAAGGGTGTGATTGT+TGG 0.451563 3:-80846536 MsG0380016241.01.T01:CDS
GGTTTGATTGCTGATGCTGC+TGG 0.461729 3:-80846446 MsG0380016241.01.T01:CDS
TTGTTGCACCAGCTATAGGT+TGG 0.462026 3:-80846610 MsG0380016241.01.T01:CDS
TGTTGCACCAGCTATAGGTT+GGG 0.466375 3:-80846609 MsG0380016241.01.T01:CDS
CGGTTGATTTGGTTCAAAGC+TGG 0.475315 3:+80846566 None:intergenic
CTGTTGATCTGGTTGAGAGC+AGG 0.486107 3:+80846347 None:intergenic
TTGGTTGAGACAAGACCCTT+TGG 0.496099 3:+80846773 None:intergenic
TGGGCTTGCTGCCTCAGGTA+TGG 0.510640 3:-80846495 MsG0380016241.01.T01:CDS
TACAGCACCCAAAGGATAGC+TGG 0.516105 3:+80846383 None:intergenic
TGGTAGGTTCTGCATGGTGG+TGG 0.518556 3:+80846793 None:intergenic
CAACCGTATGCGTAACGCAA+AGG 0.518919 3:-80846549 MsG0380016241.01.T01:CDS
AAGCCGCGTCGGAGGTTGCA+AGG 0.534226 3:+80846696 None:intergenic
AGCTGCGAAAGCCGCGTCGG+AGG 0.541223 3:+80846688 None:intergenic
ACCCTTTGGTAGGTTCTGCA+TGG 0.542276 3:+80846787 None:intergenic
AACAAAACCCAACCTATAGC+TGG 0.551151 3:+80846602 None:intergenic
AGCCGCGTCGGAGGTTGCAA+GGG 0.564916 3:+80846697 None:intergenic
ACCATGCAGAACCTACCAAA+GGG 0.580172 3:-80846788 MsG0380016241.01.T01:CDS
TTCATCAATGGCAGCAACAA+TGG 0.582829 3:-80846906 None:intergenic
TGCTGCTGGAAGTGACAACA+GGG 0.593134 3:-80846432 MsG0380016241.01.T01:CDS
TTGAGACAAGACCCTTTGGT+AGG 0.600634 3:+80846777 None:intergenic
TGTTGATGTTATCTTAGTAG+TGG 0.604181 3:+80846823 None:intergenic
CAAATAGCAGAAATAGCAGA+AGG 0.607721 3:-80846662 MsG0380016241.01.T01:CDS
CTTTGGTAGGTTCTGCATGG+TGG 0.614099 3:+80846790 None:intergenic
TTGAGCTGCGAAAGCCGCGT+CGG 0.615667 3:+80846685 None:intergenic
CACCATGCAGAACCTACCAA+AGG 0.623574 3:-80846789 MsG0380016241.01.T01:CDS
AACACAAAGTGCCTAAACAC+AGG 0.637457 3:-80846872 MsG0380016241.01.T01:CDS
ATCCCTTGCAACCTCCGACG+CGG 0.643167 3:-80846699 MsG0380016241.01.T01:CDS
TGCTTCTGACACCATACCTG+AGG 0.666780 3:+80846484 None:intergenic
ATATATTGTACAGCACCCAA+AGG 0.670524 3:+80846375 None:intergenic
CAAACAGCAGAAGTGTTCCT+CGG 0.671804 3:+80846633 None:intergenic
AAGTGAAGGTGACACAAAGT+TGG 0.674791 3:+80846745 None:intergenic
GCTCCTGCAATTGCAAGTGA+AGG 0.683304 3:+80846731 None:intergenic
ATAGCAGAAGGTGATAACCG+AGG 0.732370 3:-80846650 MsG0380016241.01.T01:CDS
GCTGCTGGAAGTGACAACAG+GGG 0.839610 3:-80846431 MsG0380016241.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TGTTGATGTTATCTTAGTAG+TGG + Chr3:80846410-80846429 None:intergenic 30.0%
ATATATTGTACAGCACCCAA+AGG + Chr3:80846858-80846877 None:intergenic 35.0%
CAAATAGCAGAAATAGCAGA+AGG - Chr3:80846568-80846587 MsG0380016241.01.T01:CDS 35.0%
! GTGCTAAGATTTTGCAACTT+GGG + Chr3:80846388-80846407 None:intergenic 35.0%
! TAAGATTTTGCAACTTGGGT+AGG + Chr3:80846384-80846403 None:intergenic 35.0%
AACAAAACCCAACCTATAGC+TGG + Chr3:80846631-80846650 None:intergenic 40.0%
AAGTGAAGGTGACACAAAGT+TGG + Chr3:80846488-80846507 None:intergenic 40.0%
! AACACAAAGTGCCTAAACAC+AGG - Chr3:80846358-80846377 MsG0380016241.01.T01:CDS 40.0%
! GGTGCTAAGATTTTGCAACT+TGG + Chr3:80846389-80846408 None:intergenic 40.0%
!! TGACACAAAGTTGGTGTTCT+TGG + Chr3:80846479-80846498 None:intergenic 40.0%
!! TTTGTTGTTGCACCAGCTAT+AGG - Chr3:80846616-80846635 MsG0380016241.01.T01:CDS 40.0%
AACCGTATGCGTAACGCAAA+GGG - Chr3:80846682-80846701 MsG0380016241.01.T01:CDS 45.0%
ACCATGCAGAACCTACCAAA+GGG - Chr3:80846442-80846461 MsG0380016241.01.T01:CDS 45.0%
ATAGCAGAAGGTGATAACCG+AGG - Chr3:80846580-80846599 MsG0380016241.01.T01:CDS 45.0%
CGTTACGCATACGGTTGATT+TGG + Chr3:80846678-80846697 None:intergenic 45.0%
CTGATCTCATCCTGTTGATC+TGG + Chr3:80846897-80846916 None:intergenic 45.0%
TCACCTTCACTTGCAATTGC+AGG - Chr3:80846496-80846515 MsG0380016241.01.T01:CDS 45.0%
TGTTGCACCAGCTATAGGTT+GGG - Chr3:80846621-80846640 MsG0380016241.01.T01:CDS 45.0%
TGTTGCACCAGCTATCCTTT+GGG - Chr3:80846840-80846859 MsG0380016241.01.T01:CDS 45.0%
TTGAGACAAGACCCTTTGGT+AGG + Chr3:80846456-80846475 None:intergenic 45.0%
TTGGTTGAGACAAGACCCTT+TGG + Chr3:80846460-80846479 None:intergenic 45.0%
TTGTTGCACCAGCTATAGGT+TGG - Chr3:80846620-80846639 MsG0380016241.01.T01:CDS 45.0%
TTGTTGCACCAGCTATCCTT+TGG - Chr3:80846839-80846858 MsG0380016241.01.T01:CDS 45.0%
! AACGCAAAGGGTGTGATTGT+TGG - Chr3:80846694-80846713 MsG0380016241.01.T01:CDS 45.0%
! ACGCAAAGGGTGTGATTGTT+GGG - Chr3:80846695-80846714 MsG0380016241.01.T01:CDS 45.0%
! GAAGCATCTGCTAGTGAGAT+TGG - Chr3:80846763-80846782 MsG0380016241.01.T01:CDS 45.0%
!! CAAACAGCAGAAGTGTTCCT+CGG + Chr3:80846600-80846619 None:intergenic 45.0%
!! CGGTTGATTTGGTTCAAAGC+TGG + Chr3:80846667-80846686 None:intergenic 45.0%
ACCCTTTGGTAGGTTCTGCA+TGG + Chr3:80846446-80846465 None:intergenic 50.0%
ACTTGGGTAGGCCTGTGTTT+AGG + Chr3:80846372-80846391 None:intergenic 50.0%
AGGGTGTGATTGTTGGGCTT+GGG - Chr3:80846701-80846720 MsG0380016241.01.T01:CDS 50.0%
ATGCTGCTGGAAGTGACAAC+AGG - Chr3:80846797-80846816 MsG0380016241.01.T01:CDS 50.0%
CAACCGTATGCGTAACGCAA+AGG - Chr3:80846681-80846700 MsG0380016241.01.T01:CDS 50.0%
CACCATGCAGAACCTACCAA+AGG - Chr3:80846441-80846460 MsG0380016241.01.T01:CDS 50.0%
CACCCTTTGCGTTACGCATA+CGG + Chr3:80846687-80846706 None:intergenic 50.0%
CTGCTCTCAACCAGATCAAC+AGG - Chr3:80846884-80846903 MsG0380016241.01.T01:CDS 50.0%
CTGTTGATCTGGTTGAGAGC+AGG + Chr3:80846886-80846905 None:intergenic 50.0%
CTTTGGTAGGTTCTGCATGG+TGG + Chr3:80846443-80846462 None:intergenic 50.0%
GCTCCTGCAATTGCAAGTGA+AGG + Chr3:80846502-80846521 None:intergenic 50.0%
GGTTTGATTGCTGATGCTGC+TGG - Chr3:80846784-80846803 MsG0380016241.01.T01:CDS 50.0%
TACAGCACCCAAAGGATAGC+TGG + Chr3:80846850-80846869 None:intergenic 50.0%
TGCTGCTGGAAGTGACAACA+GGG - Chr3:80846798-80846817 MsG0380016241.01.T01:CDS 50.0%
TGCTTCTGACACCATACCTG+AGG + Chr3:80846749-80846768 None:intergenic 50.0%
! AAGGGTGTGATTGTTGGGCT+TGG - Chr3:80846700-80846719 MsG0380016241.01.T01:CDS 50.0%
GCTGCTGGAAGTGACAACAG+GGG - Chr3:80846799-80846818 MsG0380016241.01.T01:CDS 55.0%
GTGATTGTTGGGCTTGGGCT+TGG - Chr3:80846706-80846725 MsG0380016241.01.T01:CDS 55.0%
TGGTAGGTTCTGCATGGTGG+TGG + Chr3:80846440-80846459 None:intergenic 55.0%
ATCCCTTGCAACCTCCGACG+CGG - Chr3:80846531-80846550 MsG0380016241.01.T01:CDS 60.0%
GTTGGGCTTGGGCTTGGACT+TGG - Chr3:80846712-80846731 MsG0380016241.01.T01:CDS 60.0%
TTGAGCTGCGAAAGCCGCGT+CGG + Chr3:80846548-80846567 None:intergenic 60.0%
! GGCTTGGGCTTGGACTTGGT+GGG - Chr3:80846716-80846735 MsG0380016241.01.T01:CDS 60.0%
!! TGGGCTTGCTGCCTCAGGTA+TGG - Chr3:80846735-80846754 MsG0380016241.01.T01:CDS 60.0%
AAGCCGCGTCGGAGGTTGCA+AGG + Chr3:80846537-80846556 None:intergenic 65.0%
AGCCGCGTCGGAGGTTGCAA+GGG + Chr3:80846536-80846555 None:intergenic 65.0%
GGGCTTGGGCTTGGACTTGG+TGG - Chr3:80846715-80846734 MsG0380016241.01.T01:CDS 65.0%
!! CTTGGTGGGCTTGCTGCCTC+AGG - Chr3:80846730-80846749 MsG0380016241.01.T01:CDS 65.0%
AGCTGCGAAAGCCGCGTCGG+AGG + Chr3:80846545-80846564 None:intergenic 70.0%
Chromosome Type Strat End Strand Name
Chr3 gene 80846331 80846921 80846331 ID=MsG0380016241.01;Name=MsG0380016241.01
Chr3 mRNA 80846331 80846921 80846331 ID=MsG0380016241.01.T01;Parent=MsG0380016241.01;Name=MsG0380016241.01.T01;_AED=0.49;_eAED=0.49;_QI=0|-1|0|1|-1|1|1|0|196
Chr3 exon 80846331 80846921 80846331 ID=MsG0380016241.01.T01:exon:13705;Parent=MsG0380016241.01.T01
Chr3 CDS 80846331 80846921 80846331 ID=MsG0380016241.01.T01:cds;Parent=MsG0380016241.01.T01
Gene Sequence

>MsG0380016241.01.T01

ATGGCAGCAACAATGGCAATGATGATCAACACAAAGTGCCTAAACACAGGCCTACCCAAGTTGCAAAATCTTAGCACCACTACTAAGATAACATCAACATGCAAAACCACCACCATGCAGAACCTACCAAAGGGTCTTGTCTCAACCAAGAACACCAACTTTGTGTCACCTTCACTTGCAATTGCAGGAGCAATATTTTCATCCCTTGCAACCTCCGACGCGGCTTTCGCAGCTCAACAAATAGCAGAAATAGCAGAAGGTGATAACCGAGGAACACTTCTGCTGTTTGTTGTTGCACCAGCTATAGGTTGGGTTTTGTTCAACATATTGCAGCCAGCTTTGAACCAAATCAACCGTATGCGTAACGCAAAGGGTGTGATTGTTGGGCTTGGGCTTGGACTTGGTGGGCTTGCTGCCTCAGGTATGGTGTCAGAAGCATCTGCTAGTGAGATTGGTTTGATTGCTGATGCTGCTGGAAGTGACAACAGGGGAACACTTCTGCTGTTTGTTGTTGCACCAGCTATCCTTTGGGTGCTGTACAATATATTGCAGCCTGCTCTCAACCAGATCAACAGGATGAGATCAGATTAA

Protein sequence

>MsG0380016241.01.T01

MAATMAMMINTKCLNTGLPKLQNLSTTTKITSTCKTTTMQNLPKGLVSTKNTNFVSPSLAIAGAIFSSLATSDAAFAAQQIAEIAEGDNRGTLLLFVVAPAIGWVLFNILQPALNQINRMRNAKGVIVGLGLGLGGLAASGMVSEASASEIGLIADAAGSDNRGTLLLFVVAPAILWVLYNILQPALNQINRMRSD*