AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380017143.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380017143.01.T01 MTR_3g101740 94.495 218 6 1 1 212 1 218 1.23e-150 417
MsG0380017143.01.T01 MTR_3g112410 37.719 114 61 3 95 207 13 117 1.22e-14 67.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380017143.01.T01 AT1G07700 76.515 132 30 1 76 207 74 204 9.51e-71 214
MsG0380017143.01.T01 AT1G07700 76.515 132 30 1 76 207 74 204 9.51e-71 214
MsG0380017143.01.T01 AT1G07700 76.515 132 30 1 76 207 74 204 9.51e-71 214
MsG0380017143.01.T01 AT1G07700 76.515 132 30 1 76 207 87 217 3.42e-70 213
MsG0380017143.01.T01 AT5G42980 33.628 113 67 2 95 207 12 116 6.29e-12 60.8
MsG0380017143.01.T01 AT3G51030 36.697 109 59 3 95 202 13 112 1.37e-11 59.7

Find 64 sgRNAs with CRISPR-Local

Find 90 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATATGTTCGGAAATTCATTT+TGG 0.247961 3:+92537060 MsG0380017143.01.T01:five_prime_UTR
CAAAGGCAAAAGCGCGGTTT+TGG 0.277958 3:+92536991 None:intergenic
TCCTTTCTTTGTCTCTGGTT+GGG 0.298576 3:-92538344 None:intergenic
TAGTATCCGCAAACATTAAA+AGG 0.305832 3:-92538624 None:intergenic
ACTTCCCAACAAAGTGAATT+AGG 0.309838 3:-92538561 None:intergenic
AACAATCCTTTCTTTGTCTC+TGG 0.330128 3:-92538349 None:intergenic
GTCAGCCTAATTCACTTTGT+TGG 0.358599 3:+92538556 MsG0380017143.01.T01:three_prime_UTR
CTAGATAAGTCTAAAGGAAC+TGG 0.380813 3:+92537491 MsG0380017143.01.T01:CDS
GCAAAGTTGTGCAAGAAATC+TGG 0.381106 3:+92537581 MsG0380017143.01.T01:CDS
TCAGCCTAATTCACTTTGTT+GGG 0.398705 3:+92538557 MsG0380017143.01.T01:three_prime_UTR
TTGCGGAACGACTTAGAATC+AGG 0.406477 3:+92537952 MsG0380017143.01.T01:CDS
AATTCTCTCACACATTCAAC+AGG 0.416746 3:-92537440 None:intergenic
TTATGCTTTAGAAAGATAAC+AGG 0.421854 3:-92537617 None:intergenic
TATTGATAAGCTAAGGGATA+AGG 0.422341 3:-92537135 None:intergenic
CAGTGTAAAACAAGGATCAT+AGG 0.422790 3:-92537109 None:intergenic
AACTAGTGACATACCTTGTA+TGG 0.427244 3:-92537174 None:intergenic
ATCCTTTCTTTGTCTCTGGT+TGG 0.431773 3:-92538345 None:intergenic
CTTCCATTGAATCATATGTT+CGG 0.438349 3:+92537047 MsG0380017143.01.T01:five_prime_UTR
TTTCCGAACATATGATTCAA+TGG 0.440342 3:-92537050 None:intergenic
TGCAACTTCCACAAGAGGTT+CGG 0.443956 3:-92537538 None:intergenic
AATAATTTATTGATAAGCTA+AGG 0.448915 3:-92537142 None:intergenic
CTCTTCCACTTCTACAAAGA+TGG 0.449719 3:+92538303 MsG0380017143.01.T01:CDS
GATTTCTTCCGAACCTCTTG+TGG 0.457067 3:+92537530 MsG0380017143.01.T01:CDS
GATATGTATACTTTCCATGT+AGG 0.472363 3:+92538752 MsG0380017143.01.T01:three_prime_UTR
AGTCATAGAAAACTATATCT+TGG 0.473717 3:+92537320 MsG0380017143.01.T01:CDS
TATTGATTATTAACCATACA+AGG 0.478364 3:+92537161 MsG0380017143.01.T01:five_prime_UTR
AAGCCTTGTTGACATTCAAC+GGG 0.478995 3:-92537389 None:intergenic
ACATCATCATCATCTTCATC+AGG 0.492703 3:-92537413 None:intergenic
TTGAGCTAACTTCGAGCTCA+AGG 0.494823 3:+92538414 MsG0380017143.01.T01:exon
TGACTGTTGTACGTATAAAT+CGG 0.500257 3:+92538459 MsG0380017143.01.T01:three_prime_UTR
CAAGCCTTGTTGACATTCAA+CGG 0.505128 3:-92537390 None:intergenic
AGATTAGTAGTAGATGAGTC+TGG 0.507076 3:+92538646 MsG0380017143.01.T01:three_prime_UTR
AAGTTGCAAGTATATTGAGC+AGG 0.512637 3:+92537553 MsG0380017143.01.T01:CDS
CTACAAAGATGGAAAACTGT+TGG 0.519244 3:+92538314 MsG0380017143.01.T01:CDS
AAAATTCTAGATAAGTCTAA+AGG 0.519884 3:+92537485 MsG0380017143.01.T01:CDS
TCTAAGTCGTTCCGCAACCT+CGG 0.520659 3:-92537946 None:intergenic
AGTGTAAAACAAGGATCATA+GGG 0.526894 3:-92537108 None:intergenic
AACTGGATCTCTTGTTGTGG+TGG 0.529192 3:+92537508 MsG0380017143.01.T01:CDS
TGATGAAGAATCCGAGGTTG+CGG 0.530168 3:+92537935 MsG0380017143.01.T01:CDS
TATGATTCAATGGAAGAAGA+AGG 0.550164 3:-92537040 None:intergenic
AATACAGAAATCATGACAGC+TGG 0.550199 3:-92538728 None:intergenic
ATCTAATCTGACACTTAGAA+AGG 0.556672 3:-92537231 None:intergenic
ATAATTTATTGATAAGCTAA+GGG 0.559409 3:-92537141 None:intergenic
CATAGAAAACTATATCTTGG+TGG 0.559490 3:+92537323 MsG0380017143.01.T01:CDS
ACAAAGTGAATTAGGCTGAC+AGG 0.560513 3:-92538553 None:intergenic
TCCCAACCAGAGACAAAGAA+AGG 0.565898 3:+92538343 MsG0380017143.01.T01:CDS
ATACTTGCAACTTCCACAAG+AGG 0.567703 3:-92537543 None:intergenic
ATAGAAAACTATATCTTGGT+GGG 0.574832 3:+92537324 MsG0380017143.01.T01:CDS
TGGTACCTATTAATAAAATG+AGG 0.575324 3:+92537354 MsG0380017143.01.T01:CDS
AGTTGCAAGTATATTGAGCA+GGG 0.585364 3:+92537554 MsG0380017143.01.T01:CDS
TGAGCTAACTTCGAGCTCAA+GGG 0.585733 3:+92538415 MsG0380017143.01.T01:exon
CTTCAAGAGATGAGTACTTG+AGG 0.592510 3:-92538380 None:intergenic
AAGAGATGAGTACTTGAGGA+TGG 0.618825 3:-92538376 None:intergenic
TGAACTTAGAGCGTTCATGT+TGG 0.620966 3:-92537017 None:intergenic
TGCGGAACGACTTAGAATCA+GGG 0.632999 3:+92537953 MsG0380017143.01.T01:CDS
CTAACTTCGAGCTCAAGGGA+TGG 0.651893 3:+92538419 MsG0380017143.01.T01:exon
TCTTTGTAGAAGTGGAAGAG+AGG 0.655662 3:-92538300 None:intergenic
AGGAACTGGATCTCTTGTTG+TGG 0.658617 3:+92537505 MsG0380017143.01.T01:CDS
TATCCCGTTGAATGTCAACA+AGG 0.662409 3:+92537386 MsG0380017143.01.T01:CDS
ATACGTACAACAGTCATCGA+AGG 0.671294 3:-92538452 None:intergenic
AGATTGGAAATTCTAGACTG+AGG 0.672668 3:-92537272 None:intergenic
TAAGGTGTCAGTGTAAAACA+AGG 0.672939 3:-92537117 None:intergenic
TGAGTATGATGAAGAATCCG+AGG 0.729308 3:+92537929 MsG0380017143.01.T01:CDS
ATATCACAAAGGCAAAAGCG+CGG 0.738438 3:+92536985 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATAATTTATTGATAAGCTA+AGG - Chr3:92537145-92537164 None:intergenic 15.0%
!! ATAATTTATTGATAAGCTAA+GGG - Chr3:92537144-92537163 None:intergenic 15.0%
!!! ATTATTCAATAAGTTGATTT+TGG - Chr3:92538256-92538275 None:intergenic 15.0%
!! AAAATTCTAGATAAGTCTAA+AGG + Chr3:92537485-92537504 MsG0380017143.01.T01:CDS 20.0%
!! ACTATTAGTTACAAATTAGT+TGG + Chr3:92537691-92537710 MsG0380017143.01.T01:intron 20.0%
!! ATAATACAAATGTGATACAT+TGG - Chr3:92537788-92537807 None:intergenic 20.0%
!! TTAGATATTTATAGCATGTA+GGG - Chr3:92538217-92538236 None:intergenic 20.0%
!!! TATTGATTATTAACCATACA+AGG + Chr3:92537161-92537180 MsG0380017143.01.T01:five_prime_UTR 20.0%
!!! TTGTACCTCATTTTATTAAT+AGG - Chr3:92537362-92537381 None:intergenic 20.0%
! AGTCATAGAAAACTATATCT+TGG + Chr3:92537320-92537339 MsG0380017143.01.T01:CDS 25.0%
! ATAGAAAACTATATCTTGGT+GGG + Chr3:92537324-92537343 MsG0380017143.01.T01:CDS 25.0%
! CATATAAAAAAGAACCTACA+TGG - Chr3:92538769-92538788 None:intergenic 25.0%
! GTTAGATATTTATAGCATGT+AGG - Chr3:92538218-92538237 None:intergenic 25.0%
! TAAAACCAGAAAAAGAGTAA+TGG + Chr3:92538599-92538618 MsG0380017143.01.T01:three_prime_UTR 25.0%
! TAATAATCACAAACTAATGC+AGG + Chr3:92538272-92538291 MsG0380017143.01.T01:intron 25.0%
! TGGTACCTATTAATAAAATG+AGG + Chr3:92537354-92537373 MsG0380017143.01.T01:CDS 25.0%
!! ATATGTTCGGAAATTCATTT+TGG + Chr3:92537060-92537079 MsG0380017143.01.T01:five_prime_UTR 25.0%
!! TATGGATTAAAAACTGTTAG+CGG + Chr3:92537719-92537738 MsG0380017143.01.T01:intron 25.0%
!!! TTATGCTTTAGAAAGATAAC+AGG - Chr3:92537620-92537639 None:intergenic 25.0%
AAACATGAAGATGATACTGA+TGG - Chr3:92538021-92538040 None:intergenic 30.0%
AACCAAGCTAAAAACTAGAT+TGG - Chr3:92537291-92537310 None:intergenic 30.0%
AGTGTAAAACAAGGATCATA+GGG - Chr3:92537111-92537130 None:intergenic 30.0%
ATCAATTACCTGCAATAAGA+GGG - Chr3:92537910-92537929 None:intergenic 30.0%
ATCTAATCTGACACTTAGAA+AGG - Chr3:92537234-92537253 None:intergenic 30.0%
CATAGAAAACTATATCTTGG+TGG + Chr3:92537323-92537342 MsG0380017143.01.T01:CDS 30.0%
CTTAGTATGCATTCAATTGA+TGG + Chr3:92538098-92538117 MsG0380017143.01.T01:intron 30.0%
CTTCCATTGAATCATATGTT+CGG + Chr3:92537047-92537066 MsG0380017143.01.T01:five_prime_UTR 30.0%
GATATGTATACTTTCCATGT+AGG + Chr3:92538752-92538771 MsG0380017143.01.T01:three_prime_UTR 30.0%
TAGTATCCGCAAACATTAAA+AGG - Chr3:92538627-92538646 None:intergenic 30.0%
TATGATTCAATGGAAGAAGA+AGG - Chr3:92537043-92537062 None:intergenic 30.0%
TATTGATAAGCTAAGGGATA+AGG - Chr3:92537138-92537157 None:intergenic 30.0%
TGACTGTTGTACGTATAAAT+CGG + Chr3:92538459-92538478 MsG0380017143.01.T01:three_prime_UTR 30.0%
TTAACTGTTCAGTTTGTCTA+TGG + Chr3:92537662-92537681 MsG0380017143.01.T01:intron 30.0%
TTTCCGAACATATGATTCAA+TGG - Chr3:92537053-92537072 None:intergenic 30.0%
! ATGGTACCTTTTAATGTTTG+CGG + Chr3:92538618-92538637 MsG0380017143.01.T01:three_prime_UTR 30.0%
! GATATAGTTTTCTATGACTG+TGG - Chr3:92537319-92537338 None:intergenic 30.0%
!! ACAAATTAGTTGGTGACTTA+TGG + Chr3:92537701-92537720 MsG0380017143.01.T01:intron 30.0%
!! GATGGATAATGTTGTTTCTT+AGG + Chr3:92538116-92538135 MsG0380017143.01.T01:intron 30.0%
!!! TTCCAATCTAGTTTTTAGCT+TGG + Chr3:92537286-92537305 MsG0380017143.01.T01:CDS 30.0%
AACAATCCTTTCTTTGTCTC+TGG - Chr3:92538352-92538371 None:intergenic 35.0%
AACTAGTGACATACCTTGTA+TGG - Chr3:92537177-92537196 None:intergenic 35.0%
AAGTTGCAAGTATATTGAGC+AGG + Chr3:92537553-92537572 MsG0380017143.01.T01:CDS 35.0%
AATACAGAAATCATGACAGC+TGG - Chr3:92538731-92538750 None:intergenic 35.0%
AATTCTCTCACACATTCAAC+AGG - Chr3:92537443-92537462 None:intergenic 35.0%
ACATCATCATCATCTTCATC+AGG - Chr3:92537416-92537435 None:intergenic 35.0%
ACTTCCCAACAAAGTGAATT+AGG - Chr3:92538564-92538583 None:intergenic 35.0%
AGATTAGTAGTAGATGAGTC+TGG + Chr3:92538646-92538665 MsG0380017143.01.T01:three_prime_UTR 35.0%
AGATTGGAAATTCTAGACTG+AGG - Chr3:92537275-92537294 None:intergenic 35.0%
AGTTGCAAGTATATTGAGCA+GGG + Chr3:92537554-92537573 MsG0380017143.01.T01:CDS 35.0%
ATATCTTGGTGGGACAAAAA+TGG + Chr3:92537334-92537353 MsG0380017143.01.T01:CDS 35.0%
CAGTGTAAAACAAGGATCAT+AGG - Chr3:92537112-92537131 None:intergenic 35.0%
CATCAATTACCTGCAATAAG+AGG - Chr3:92537911-92537930 None:intergenic 35.0%
CTACAAAGATGGAAAACTGT+TGG + Chr3:92538314-92538333 MsG0380017143.01.T01:CDS 35.0%
CTAGATAAGTCTAAAGGAAC+TGG + Chr3:92537491-92537510 MsG0380017143.01.T01:CDS 35.0%
TCAGCCTAATTCACTTTGTT+GGG + Chr3:92538557-92538576 MsG0380017143.01.T01:three_prime_UTR 35.0%
! AGGTACCATTACTCTTTTTC+TGG - Chr3:92538607-92538626 None:intergenic 35.0%
! GTTTTCCATCTTTGTAGAAG+TGG - Chr3:92538311-92538330 None:intergenic 35.0%
! TAAGGTGTCAGTGTAAAACA+AGG - Chr3:92537120-92537139 None:intergenic 35.0%
!!! TCTGGTTTTACAAACTACAC+TGG - Chr3:92538589-92538608 None:intergenic 35.0%
AAGAGATGAGTACTTGAGGA+TGG - Chr3:92538379-92538398 None:intergenic 40.0%
ACAAAGTGAATTAGGCTGAC+AGG - Chr3:92538556-92538575 None:intergenic 40.0%
ATACGTACAACAGTCATCGA+AGG - Chr3:92538455-92538474 None:intergenic 40.0%
ATACTTGCAACTTCCACAAG+AGG - Chr3:92537546-92537565 None:intergenic 40.0%
ATCCTTTCTTTGTCTCTGGT+TGG - Chr3:92538348-92538367 None:intergenic 40.0%
CATGAAGATGATACTGATGG+CGG - Chr3:92538018-92538037 None:intergenic 40.0%
CTCTTCCACTTCTACAAAGA+TGG + Chr3:92538303-92538322 MsG0380017143.01.T01:CDS 40.0%
CTGTTCAGTTTGTCTATGGT+TGG + Chr3:92537666-92537685 MsG0380017143.01.T01:intron 40.0%
CTTCAAGAGATGAGTACTTG+AGG - Chr3:92538383-92538402 None:intergenic 40.0%
GCAAAGTTGTGCAAGAAATC+TGG + Chr3:92537581-92537600 MsG0380017143.01.T01:CDS 40.0%
GTCAGCCTAATTCACTTTGT+TGG + Chr3:92538556-92538575 MsG0380017143.01.T01:three_prime_UTR 40.0%
TATCACTTCCCTCTTATTGC+AGG + Chr3:92537899-92537918 MsG0380017143.01.T01:intron 40.0%
TATCCCGTTGAATGTCAACA+AGG + Chr3:92537386-92537405 MsG0380017143.01.T01:CDS 40.0%
TCCTTTCTTTGTCTCTGGTT+GGG - Chr3:92538347-92538366 None:intergenic 40.0%
TCTTTGTAGAAGTGGAAGAG+AGG - Chr3:92538303-92538322 None:intergenic 40.0%
TGAGTATGATGAAGAATCCG+AGG + Chr3:92537929-92537948 MsG0380017143.01.T01:CDS 40.0%
! TGAACTTAGAGCGTTCATGT+TGG - Chr3:92537020-92537039 None:intergenic 40.0%
!! AAGCCTTGTTGACATTCAAC+GGG - Chr3:92537392-92537411 None:intergenic 40.0%
!! CAAGCCTTGTTGACATTCAA+CGG - Chr3:92537393-92537412 None:intergenic 40.0%
AGGAACTGGATCTCTTGTTG+TGG + Chr3:92537505-92537524 MsG0380017143.01.T01:CDS 45.0%
GATTTCTTCCGAACCTCTTG+TGG + Chr3:92537530-92537549 MsG0380017143.01.T01:CDS 45.0%
TCCCAACCAGAGACAAAGAA+AGG + Chr3:92538343-92538362 MsG0380017143.01.T01:CDS 45.0%
TGAGCTAACTTCGAGCTCAA+GGG + Chr3:92538415-92538434 MsG0380017143.01.T01:exon 45.0%
TGATGAAGAATCCGAGGTTG+CGG + Chr3:92537935-92537954 MsG0380017143.01.T01:CDS 45.0%
TGCAACTTCCACAAGAGGTT+CGG - Chr3:92537541-92537560 None:intergenic 45.0%
TGCGGAACGACTTAGAATCA+GGG + Chr3:92537953-92537972 MsG0380017143.01.T01:CDS 45.0%
TTGAGCTAACTTCGAGCTCA+AGG + Chr3:92538414-92538433 MsG0380017143.01.T01:exon 45.0%
TTGCGGAACGACTTAGAATC+AGG + Chr3:92537952-92537971 MsG0380017143.01.T01:CDS 45.0%
! AACTGGATCTCTTGTTGTGG+TGG + Chr3:92537508-92537527 MsG0380017143.01.T01:CDS 45.0%
CTAACTTCGAGCTCAAGGGA+TGG + Chr3:92538419-92538438 MsG0380017143.01.T01:exon 50.0%
TCTAAGTCGTTCCGCAACCT+CGG - Chr3:92537949-92537968 None:intergenic 50.0%
Chromosome Type Strat End Strand Name
Chr3 gene 92536998 92538829 92536998 ID=MsG0380017143.01;Name=MsG0380017143.01
Chr3 mRNA 92536998 92538829 92536998 ID=MsG0380017143.01.T01;Parent=MsG0380017143.01;Name=MsG0380017143.01.T01;_AED=0.23;_eAED=0.23;_QI=187|1|1|1|1|1|3|407|212
Chr3 exon 92536998 92537640 92536998 ID=MsG0380017143.01.T01:exon:12588;Parent=MsG0380017143.01.T01
Chr3 exon 92537921 92537974 92537921 ID=MsG0380017143.01.T01:exon:12589;Parent=MsG0380017143.01.T01
Chr3 exon 92538294 92538829 92538294 ID=MsG0380017143.01.T01:exon:12590;Parent=MsG0380017143.01.T01
Chr3 five_prime_UTR 92536998 92537184 92536998 ID=MsG0380017143.01.T01:five_prime_utr;Parent=MsG0380017143.01.T01
Chr3 CDS 92537185 92537640 92537185 ID=MsG0380017143.01.T01:cds;Parent=MsG0380017143.01.T01
Chr3 CDS 92537921 92537974 92537921 ID=MsG0380017143.01.T01:cds;Parent=MsG0380017143.01.T01
Chr3 CDS 92538294 92538422 92538294 ID=MsG0380017143.01.T01:cds;Parent=MsG0380017143.01.T01
Chr3 three_prime_UTR 92538423 92538829 92538423 ID=MsG0380017143.01.T01:three_prime_utr;Parent=MsG0380017143.01.T01
Gene Sequence

>MsG0380017143.01.T01

ATGTCACTAGTTGTCATTCAGCAGCAGAATATTCTGCATACAAAGTCCTTTCTAAGTGTCAGATTAGATCTGTACTTAAACAAACAACCTCAGTCTAGAATTTCCAATCTAGTTTTTAGCTTGGTTTCTAACCACAGTCATAGAAAACTATATCTTGGTGGGACAAAAATGGTACCTATTAATAAAATGAGGTACAATTTCTATCCCGTTGAATGTCAACAAGGCTTGCCTGATGAAGATGATGATGATGTCTGTCCTGTTGAATGTGTGAGAGAATTCAAGACTGATGAAGAGTTCTTGAAAATTCTAGATAAGTCTAAAGGAACTGGATCTCTTGTTGTGGTGGATTTCTTCCGAACCTCTTGTGGAAGTTGCAAGTATATTGAGCAGGGTTTTGCAAAGTTGTGCAAGAAATCTGGTAGCAATGATGTTCCTGTTATCTTTCTAAAGCATAATGTAATTGATGAGTATGATGAAGAATCCGAGGTTGCGGAACGACTTAGAATCAGGGCAGTGCCTCTCTTCCACTTCTACAAAGATGGAAAACTGTTGGAAGCATTCCCAACCAGAGACAAAGAAAGGATTGTTGCTGCCATCCTCAAGTACTCATCTCTTGAAGCAGAAGATATTTTGAGCTAA

Protein sequence

>MsG0380017143.01.T01

MSLVVIQQQNILHTKSFLSVRLDLYLNKQPQSRISNLVFSLVSNHSHRKLYLGGTKMVPINKMRYNFYPVECQQGLPDEDDDDVCPVECVREFKTDEEFLKILDKSKGTGSLVVVDFFRTSCGSCKYIEQGFAKLCKKSGSNDVPVIFLKHNVIDEYDEESEVAERLRIRAVPLFHFYKDGKLLEAFPTRDKERIVAAILKYSSLEAEDILS*