AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480023248.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480023248.01.T01 MTR_8g089850 96.139 259 6 1 1 259 72 326 0.0 508
MsG0480023248.01.T01 MTR_3g086670 58.935 263 99 6 1 259 71 328 2.14e-98 291
MsG0480023248.01.T01 MTR_3g099670 39.111 225 130 4 1 221 77 298 8.72e-44 151
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480023248.01.T01 AT4G40080 47.253 273 126 7 1 258 80 349 6.38e-71 222
MsG0480023248.01.T01 AT5G10410 35.176 199 110 7 3 191 78 267 1.20e-22 95.5
MsG0480023248.01.T01 AT5G65370 28.079 203 126 6 1 191 75 269 6.69e-13 67.4

Find 76 sgRNAs with CRISPR-Local

Find 77 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGTTGAAGTGAATGAGTTTA+AGG 0.146193 4:-82631135 MsG0480023248.01.T01:CDS
AGAGAGGGTGGTGATGATTT+TGG 0.182988 4:-82631039 MsG0480023248.01.T01:CDS
CTTTGTACTTCACGAATATT+AGG 0.195912 4:-82631377 MsG0480023248.01.T01:CDS
AGGTTAGGGTGTTTGGAATT+TGG 0.217369 4:-82631110 MsG0480023248.01.T01:CDS
TAAGGAGAGGTTAGGGTGTT+TGG 0.259878 4:-82631117 MsG0480023248.01.T01:CDS
ATATTAGGTTTCTTCTTTCT+TGG 0.260154 4:-82631362 MsG0480023248.01.T01:CDS
GTTGAAGGAGTTTGATTCTT+TGG 0.272817 4:-82631285 MsG0480023248.01.T01:CDS
TTGTTCATGTTCACTTGATC+TGG 0.299217 4:+82631233 None:intergenic
GGTGGATGAGATAGTGAATT+TGG 0.313395 4:-82631195 MsG0480023248.01.T01:CDS
AATGAGTTTAAGGAGAGGTT+AGG 0.335488 4:-82631125 MsG0480023248.01.T01:CDS
GGTTGGAATGGAGGTGTATA+AGG 0.337777 4:-82630970 MsG0480023248.01.T01:CDS
TATTAGGTTTCTTCTTTCTT+GGG 0.348931 4:-82631361 MsG0480023248.01.T01:CDS
TGAATTTGGTTTGTGAAGAT+TGG 0.373475 4:-82631181 MsG0480023248.01.T01:CDS
TTCGTGGGAACTTTCTTGTT+GGG 0.385009 4:-82631432 MsG0480023248.01.T01:CDS
GAGAGCAACGGCGGCGTTGT+TGG 0.403727 4:+82631589 None:intergenic
CTTCGTGGGAACTTTCTTGT+TGG 0.404521 4:-82631433 MsG0480023248.01.T01:CDS
GGAAAAGGGTAGGGTGCATA+AGG 0.410677 4:-82630949 MsG0480023248.01.T01:CDS
TTCTTTGGTGACACTGGTTG+AGG 0.421524 4:-82631270 MsG0480023248.01.T01:CDS
ACAGCAAGGGTTGTGGGATT+CGG 0.424594 4:-82631012 MsG0480023248.01.T01:CDS
TCAGTTCTCGTGATTCCCTT+TGG 0.432756 4:-82630875 MsG0480023248.01.T01:CDS
ATTTGGAGAAGCTGTTGAAT+TGG 0.433804 4:-82631093 MsG0480023248.01.T01:CDS
GAATTTGGTTTGTGAAGATT+GGG 0.435014 4:-82631180 MsG0480023248.01.T01:CDS
AACTTTCTTGTTGGGTACGC+TGG 0.446346 4:-82631424 MsG0480023248.01.T01:CDS
TACAAACTGTGGTTTGTTGA+AGG 0.449445 4:-82631300 MsG0480023248.01.T01:CDS
GGAGTCACAGCAAGGGTTGT+GGG 0.451429 4:-82631018 MsG0480023248.01.T01:CDS
CCCTTTGGTTTCCCTCTGGA+AGG 0.452637 4:-82630860 MsG0480023248.01.T01:CDS
AATGGAGGTGTATAAGGAAA+AGG 0.456653 4:-82630964 MsG0480023248.01.T01:CDS
TTATCTGTTTACCCGTCAAC+CGG 0.470174 4:-82631506 MsG0480023248.01.T01:CDS
AAAGGGTAGGGTGCATAAGG+AGG 0.471808 4:-82630946 MsG0480023248.01.T01:CDS
CAAGAAAGTTCCCACGAAGT+TGG 0.471951 4:+82631437 None:intergenic
GATTCCCTTTGGTTTCCCTC+TGG 0.472352 4:-82630864 MsG0480023248.01.T01:CDS
AGAGAGGTGAAGGATAAGGT+TGG 0.476449 4:-82630987 MsG0480023248.01.T01:CDS
ATAAGGAGGGAAGAAAGTTA+AGG 0.477466 4:-82630932 MsG0480023248.01.T01:CDS
ATGAGTTTAAGGAGAGGTTA+GGG 0.479103 4:-82631124 MsG0480023248.01.T01:CDS
TGGAGTCACAGCAAGGGTTG+TGG 0.486285 4:-82631019 MsG0480023248.01.T01:CDS
AAGGGTAGGGTGCATAAGGA+GGG 0.491561 4:-82630945 MsG0480023248.01.T01:CDS
TCTTTGGTGACACTGGTTGA+GGG 0.496012 4:-82631269 MsG0480023248.01.T01:CDS
GGTTTGTTGTTTGAAGAGGT+TGG 0.498420 4:-82631072 MsG0480023248.01.T01:CDS
ATGGAGGTGTATAAGGAAAA+GGG 0.504494 4:-82630963 MsG0480023248.01.T01:CDS
CTTTGGTGACACTGGTTGAG+GGG 0.505079 4:-82631268 MsG0480023248.01.T01:CDS
GGTGAAGGATAAGGTTGGAA+TGG 0.506608 4:-82630982 MsG0480023248.01.T01:CDS
AGTTTCTACCACCGGTTGAC+GGG 0.513448 4:+82631495 None:intergenic
CTTGGGAAATCTTTGTGTGA+CGG 0.516792 4:-82631344 MsG0480023248.01.T01:CDS
AATTGGTTTGTTGTTTGAAG+AGG 0.527047 4:-82631076 MsG0480023248.01.T01:CDS
TAGTTTCTACCACCGGTTGA+CGG 0.533065 4:+82631494 None:intergenic
GGCGAGAGAGGTGAAGGATA+AGG 0.538255 4:-82630991 MsG0480023248.01.T01:CDS
GTTAAGATAGTTTCTACCAC+CGG 0.540411 4:+82631487 None:intergenic
GTTTGATTCTTTGGTGACAC+TGG 0.541118 4:-82631276 MsG0480023248.01.T01:CDS
GAAGGATAAGGTTGGAATGG+AGG 0.543884 4:-82630979 MsG0480023248.01.T01:CDS
GGTTGGAGGAGTGTAAAGAG+AGG 0.557650 4:-82631055 MsG0480023248.01.T01:CDS
CTTGAAGTATGAAGCTTCCA+TGG 0.558623 4:+82631534 None:intergenic
GGAGGAGTGTAAAGAGAGGG+TGG 0.560791 4:-82631051 MsG0480023248.01.T01:CDS
TAAGGTTTAGTGAGTCTGAT+CGG 0.565323 4:-82630914 MsG0480023248.01.T01:CDS
GGATTCGGCGAGAGAGGTGA+AGG 0.565528 4:-82630997 MsG0480023248.01.T01:CDS
GTTGGAGGAGTGTAAAGAGA+GGG 0.565591 4:-82631054 MsG0480023248.01.T01:CDS
ATAATACAAATCCAACTTCG+TGG 0.571622 4:-82631448 MsG0480023248.01.T01:CDS
TTGTTGTTTGAAGAGGTTGG+AGG 0.572648 4:-82631069 MsG0480023248.01.T01:CDS
CCTTCCAGAGGGAAACCAAA+GGG 0.573156 4:+82630860 None:intergenic
TAATACAAATCCAACTTCGT+GGG 0.573656 4:-82631447 MsG0480023248.01.T01:CDS
CAAGAACAAGAACAAGTTGG+TGG 0.583931 4:-82631213 MsG0480023248.01.T01:CDS
GAACAAGAACAAGAACAAGT+TGG 0.588041 4:-82631216 MsG0480023248.01.T01:CDS
GGTGTATAAGGAAAAGGGTA+GGG 0.591904 4:-82630958 MsG0480023248.01.T01:CDS
GTTGTGGGATTCGGCGAGAG+AGG 0.592139 4:-82631003 MsG0480023248.01.T01:CDS
AGGTGTATAAGGAAAAGGGT+AGG 0.594328 4:-82630959 MsG0480023248.01.T01:CDS
GTTCATCATATCATCAGCCA+TGG 0.595539 4:-82631551 MsG0480023248.01.T01:CDS
TTTGGTTTGTGAAGATTGGG+TGG 0.619906 4:-82631177 MsG0480023248.01.T01:CDS
AAGTGAATGAGTTTAAGGAG+AGG 0.627174 4:-82631130 MsG0480023248.01.T01:CDS
CTTTACAATAACCTTCCAGA+GGG 0.627666 4:+82630849 None:intergenic
TCTGTTTACCCGTCAACCGG+TGG 0.631799 4:-82631503 MsG0480023248.01.T01:CDS
GTTTCTTGTCTTACAAACTG+TGG 0.632756 4:-82631311 MsG0480023248.01.T01:CDS
TATTATGTCGAAAATTCGAG+AGG 0.648120 4:+82631465 None:intergenic
GAGAGACTTGAGAGCAACGG+CGG 0.649205 4:+82631580 None:intergenic
ACCTTCCAGAGGGAAACCAA+AGG 0.651596 4:+82630859 None:intergenic
TTGGGTGGTGATAGAAACTG+TGG 0.673066 4:-82631162 MsG0480023248.01.T01:CDS
GATGAGAGACTTGAGAGCAA+CGG 0.674885 4:+82631577 None:intergenic
ACTTTACAATAACCTTCCAG+AGG 0.687480 4:+82630848 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATATTAGGTTTCTTCTTTCT+TGG - Chr4:82631097-82631116 MsG0480023248.01.T01:CDS 25.0%
! TATTAGGTTTCTTCTTTCTT+GGG - Chr4:82631098-82631117 MsG0480023248.01.T01:CDS 25.0%
AGTTGAAGTGAATGAGTTTA+AGG - Chr4:82631324-82631343 MsG0480023248.01.T01:CDS 30.0%
ATAATACAAATCCAACTTCG+TGG - Chr4:82631011-82631030 MsG0480023248.01.T01:CDS 30.0%
CTTTGTACTTCACGAATATT+AGG - Chr4:82631082-82631101 MsG0480023248.01.T01:CDS 30.0%
TAATACAAATCCAACTTCGT+GGG - Chr4:82631012-82631031 MsG0480023248.01.T01:CDS 30.0%
TATTATGTCGAAAATTCGAG+AGG + Chr4:82630997-82631016 None:intergenic 30.0%
!! AATTGGTTTGTTGTTTGAAG+AGG - Chr4:82631383-82631402 MsG0480023248.01.T01:CDS 30.0%
!! GAATTTGGTTTGTGAAGATT+GGG - Chr4:82631279-82631298 MsG0480023248.01.T01:CDS 30.0%
!! TGAATTTGGTTTGTGAAGAT+TGG - Chr4:82631278-82631297 MsG0480023248.01.T01:CDS 30.0%
AAGTGAATGAGTTTAAGGAG+AGG - Chr4:82631329-82631348 MsG0480023248.01.T01:CDS 35.0%
AATGAGTTTAAGGAGAGGTT+AGG - Chr4:82631334-82631353 MsG0480023248.01.T01:CDS 35.0%
ATAAGGAGGGAAGAAAGTTA+AGG - Chr4:82631527-82631546 MsG0480023248.01.T01:CDS 35.0%
ATGAGTTTAAGGAGAGGTTA+GGG - Chr4:82631335-82631354 MsG0480023248.01.T01:CDS 35.0%
ATTTGGAGAAGCTGTTGAAT+TGG - Chr4:82631366-82631385 MsG0480023248.01.T01:CDS 35.0%
GAACAAGAACAAGAACAAGT+TGG - Chr4:82631243-82631262 MsG0480023248.01.T01:CDS 35.0%
GTTAAGATAGTTTCTACCAC+CGG + Chr4:82630975-82630994 None:intergenic 35.0%
GTTGAAGGAGTTTGATTCTT+TGG - Chr4:82631174-82631193 MsG0480023248.01.T01:CDS 35.0%
GTTTCTTGTCTTACAAACTG+TGG - Chr4:82631148-82631167 MsG0480023248.01.T01:CDS 35.0%
TAAGGTTTAGTGAGTCTGAT+CGG - Chr4:82631545-82631564 MsG0480023248.01.T01:CDS 35.0%
TTGTTCATGTTCACTTGATC+TGG + Chr4:82631229-82631248 None:intergenic 35.0%
! AATGGAGGTGTATAAGGAAA+AGG - Chr4:82631495-82631514 MsG0480023248.01.T01:CDS 35.0%
! ATGGAGGTGTATAAGGAAAA+GGG - Chr4:82631496-82631515 MsG0480023248.01.T01:CDS 35.0%
!! TACAAACTGTGGTTTGTTGA+AGG - Chr4:82631159-82631178 MsG0480023248.01.T01:CDS 35.0%
AGGTGTATAAGGAAAAGGGT+AGG - Chr4:82631500-82631519 MsG0480023248.01.T01:CDS 40.0%
CTTGAAGTATGAAGCTTCCA+TGG + Chr4:82630928-82630947 None:intergenic 40.0%
CTTGGGAAATCTTTGTGTGA+CGG - Chr4:82631115-82631134 MsG0480023248.01.T01:CDS 40.0%
GGTGGATGAGATAGTGAATT+TGG - Chr4:82631264-82631283 MsG0480023248.01.T01:CDS 40.0%
GGTGTATAAGGAAAAGGGTA+GGG - Chr4:82631501-82631520 MsG0480023248.01.T01:CDS 40.0%
GTTCATCATATCATCAGCCA+TGG - Chr4:82630908-82630927 MsG0480023248.01.T01:CDS 40.0%
TTATCTGTTTACCCGTCAAC+CGG - Chr4:82630953-82630972 MsG0480023248.01.T01:CDS 40.0%
TTCGTGGGAACTTTCTTGTT+GGG - Chr4:82631027-82631046 MsG0480023248.01.T01:CDS 40.0%
! AGGTTAGGGTGTTTGGAATT+TGG - Chr4:82631349-82631368 MsG0480023248.01.T01:CDS 40.0%
! CAAGAACAAGAACAAGTTGG+TGG - Chr4:82631246-82631265 MsG0480023248.01.T01:CDS 40.0%
! GTTTGATTCTTTGGTGACAC+TGG - Chr4:82631183-82631202 MsG0480023248.01.T01:CDS 40.0%
!! GGTTTGTTGTTTGAAGAGGT+TGG - Chr4:82631387-82631406 MsG0480023248.01.T01:CDS 40.0%
!! TTGTTGTTTGAAGAGGTTGG+AGG - Chr4:82631390-82631409 MsG0480023248.01.T01:CDS 40.0%
!! TTTGGTTTGTGAAGATTGGG+TGG - Chr4:82631282-82631301 MsG0480023248.01.T01:CDS 40.0%
!!! ATGATTTTGGAGTCACAGCA+AGG - Chr4:82631433-82631452 MsG0480023248.01.T01:CDS 40.0%
!!! CGTTGTTGGTGTTTTGAAGA+CGG + Chr4:82630859-82630878 None:intergenic 40.0%
!!! TGATTTTGGAGTCACAGCAA+GGG - Chr4:82631434-82631453 MsG0480023248.01.T01:CDS 40.0%
AACTTTCTTGTTGGGTACGC+TGG - Chr4:82631035-82631054 MsG0480023248.01.T01:CDS 45.0%
AGAGAGGTGAAGGATAAGGT+TGG - Chr4:82631472-82631491 MsG0480023248.01.T01:CDS 45.0%
CAAGAAAGTTCCCACGAAGT+TGG + Chr4:82631025-82631044 None:intergenic 45.0%
CTTCGTGGGAACTTTCTTGT+TGG - Chr4:82631026-82631045 MsG0480023248.01.T01:CDS 45.0%
GAAGGATAAGGTTGGAATGG+AGG - Chr4:82631480-82631499 MsG0480023248.01.T01:CDS 45.0%
GATGAGAGACTTGAGAGCAA+CGG + Chr4:82630885-82630904 None:intergenic 45.0%
GGTGAAGGATAAGGTTGGAA+TGG - Chr4:82631477-82631496 MsG0480023248.01.T01:CDS 45.0%
TCAGTTCTCGTGATTCCCTT+TGG - Chr4:82631584-82631603 MsG0480023248.01.T01:CDS 45.0%
TTGGGTGGTGATAGAAACTG+TGG - Chr4:82631297-82631316 MsG0480023248.01.T01:CDS 45.0%
! GGTTGGAATGGAGGTGTATA+AGG - Chr4:82631489-82631508 MsG0480023248.01.T01:CDS 45.0%
! GTTGGAGGAGTGTAAAGAGA+GGG - Chr4:82631405-82631424 MsG0480023248.01.T01:CDS 45.0%
! TAAGGAGAGGTTAGGGTGTT+TGG - Chr4:82631342-82631361 MsG0480023248.01.T01:CDS 45.0%
! TAGTTTCTACCACCGGTTGA+CGG + Chr4:82630968-82630987 None:intergenic 45.0%
! TCTTTGGTGACACTGGTTGA+GGG - Chr4:82631190-82631209 MsG0480023248.01.T01:CDS 45.0%
! TTCTTTGGTGACACTGGTTG+AGG - Chr4:82631189-82631208 MsG0480023248.01.T01:CDS 45.0%
!! AGAGAGGGTGGTGATGATTT+TGG - Chr4:82631420-82631439 MsG0480023248.01.T01:CDS 45.0%
AAAGGGTAGGGTGCATAAGG+AGG - Chr4:82631513-82631532 MsG0480023248.01.T01:CDS 50.0%
AAGGGTAGGGTGCATAAGGA+GGG - Chr4:82631514-82631533 MsG0480023248.01.T01:CDS 50.0%
ACAGCAAGGGTTGTGGGATT+CGG - Chr4:82631447-82631466 MsG0480023248.01.T01:CDS 50.0%
ACCTTCCAGAGGGAAACCAA+AGG + Chr4:82631603-82631622 None:intergenic 50.0%
CCTTCCAGAGGGAAACCAAA+GGG + Chr4:82631602-82631621 None:intergenic 50.0%
GGAAAAGGGTAGGGTGCATA+AGG - Chr4:82631510-82631529 MsG0480023248.01.T01:CDS 50.0%
! AGTTTCTACCACCGGTTGAC+GGG + Chr4:82630967-82630986 None:intergenic 50.0%
! CTTTGGTGACACTGGTTGAG+GGG - Chr4:82631191-82631210 MsG0480023248.01.T01:CDS 50.0%
! GATTCCCTTTGGTTTCCCTC+TGG - Chr4:82631595-82631614 MsG0480023248.01.T01:CDS 50.0%
! GGTTGGAGGAGTGTAAAGAG+AGG - Chr4:82631404-82631423 MsG0480023248.01.T01:CDS 50.0%
GAGAGACTTGAGAGCAACGG+CGG + Chr4:82630882-82630901 None:intergenic 55.0%
GGAGTCACAGCAAGGGTTGT+GGG - Chr4:82631441-82631460 MsG0480023248.01.T01:CDS 55.0%
GGCGAGAGAGGTGAAGGATA+AGG - Chr4:82631468-82631487 MsG0480023248.01.T01:CDS 55.0%
TCTGTTTACCCGTCAACCGG+TGG - Chr4:82630956-82630975 MsG0480023248.01.T01:CDS 55.0%
TGGAGTCACAGCAAGGGTTG+TGG - Chr4:82631440-82631459 MsG0480023248.01.T01:CDS 55.0%
! CCCTTTGGTTTCCCTCTGGA+AGG - Chr4:82631599-82631618 MsG0480023248.01.T01:CDS 55.0%
! GGAGGAGTGTAAAGAGAGGG+TGG - Chr4:82631408-82631427 MsG0480023248.01.T01:CDS 55.0%
GGATTCGGCGAGAGAGGTGA+AGG - Chr4:82631462-82631481 MsG0480023248.01.T01:CDS 60.0%
GTTGTGGGATTCGGCGAGAG+AGG - Chr4:82631456-82631475 MsG0480023248.01.T01:CDS 60.0%
GAGAGCAACGGCGGCGTTGT+TGG + Chr4:82630873-82630892 None:intergenic 65.0%
Chromosome Type Strat End Strand Name
Chr4 gene 82630851 82631630 82630851 ID=MsG0480023248.01;Name=MsG0480023248.01
Chr4 mRNA 82630851 82631630 82630851 ID=MsG0480023248.01.T01;Parent=MsG0480023248.01;Name=MsG0480023248.01.T01;_AED=0.29;_eAED=0.29;_QI=0|-1|0|1|-1|1|1|0|259
Chr4 exon 82630851 82631630 82630851 ID=MsG0480023248.01.T01:exon:948;Parent=MsG0480023248.01.T01
Chr4 CDS 82630851 82631630 82630851 ID=MsG0480023248.01.T01:cds;Parent=MsG0480023248.01.T01
Gene Sequence

>MsG0480023248.01.T01

ATGGACCGTCTTCAAAACACCAACAACGCCGCCGTTGCTCTCAAGTCTCTCATCATCGTTCATCATATCATCAGCCATGGAAGCTTCATACTTCAAGATCAGTTATCTGTTTACCCGTCAACCGGTGGTAGAAACTATCTTAACCTCTCGAATTTTCGACATAATACAAATCCAACTTCGTGGGAACTTTCTTGTTGGGTACGCTGGTTTGCTGAACATATAGAGAATCTTCTTTGTACTTCACGAATATTAGGTTTCTTCTTTCTTGGGAAATCTTTGTGTGACGGTGAAGAGAGAGTTTCTTGTCTTACAAACTGTGGTTTGTTGAAGGAGTTTGATTCTTTGGTGACACTGGTTGAGGGGATTTGTAAGAGACCAGATCAAGTGAACATGAACAAGAACAAGAACAAGTTGGTGGATGAGATAGTGAATTTGGTTTGTGAAGATTGGGTGGTGATAGAAACTGTGGTGAAAGTTGAAGTGAATGAGTTTAAGGAGAGGTTAGGGTGTTTGGAATTTGGAGAAGCTGTTGAATTGGTTTGTTGTTTGAAGAGGTTGGAGGAGTGTAAAGAGAGGGTGGTGATGATTTTGGAGTCACAGCAAGGGTTGTGGGATTCGGCGAGAGAGGTGAAGGATAAGGTTGGAATGGAGGTGTATAAGGAAAAGGGTAGGGTGCATAAGGAGGGAAGAAAGTTAAGGTTTAGTGAGTCTGATCGGTTTTCTGCTAGAGTTATCAGTTCTCGTGATTCCCTTTGGTTTCCCTCTGGAAGGTTATTGTAA

Protein sequence

>MsG0480023248.01.T01

MDRLQNTNNAAVALKSLIIVHHIISHGSFILQDQLSVYPSTGGRNYLNLSNFRHNTNPTSWELSCWVRWFAEHIENLLCTSRILGFFFLGKSLCDGEERVSCLTNCGLLKEFDSLVTLVEGICKRPDQVNMNKNKNKLVDEIVNLVCEDWVVIETVVKVEVNEFKERLGCLEFGEAVELVCCLKRLEECKERVVMILESQQGLWDSAREVKDKVGMEVYKEKGRVHKEGRKLRFSESDRFSARVISSRDSLWFPSGRLL*