AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480020051.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480020051.01.T01 MTR_3g035620 97.959 98 2 0 1 98 1 98 1.09e-65 193
MsG0480020051.01.T01 MTR_0002s0250 97.959 98 2 0 1 98 116 213 2.87e-65 196
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 64 sgRNAs with CRISPR-Local

Find 66 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTACGCCCTTCCTCGTCTC+TGG 0.292452 4:-32893140 None:intergenic
GTTCGAAAGGTTGACCTATT+CGG 0.297764 4:-32893214 None:intergenic
TTCGAAAGGTTGACCTATTC+GGG 0.303799 4:-32893213 None:intergenic
CATTTCGCTCGCCGCTACTA+CGG 0.368119 4:-32893323 None:intergenic
CTAGTGATGCTTTCGGCTAC+TGG 0.378135 4:-32893445 None:intergenic
CTTCCATCTAGCAGCACCTT+AGG 0.381212 4:+32893050 MsG0480020051.01.T01:CDS
CGTAGTAGCGGCGAGCGAAA+TGG 0.384779 4:+32893324 MsG0480020051.01.T01:exon
AGTAAGCGACGAAATGCTTC+GGG 0.387147 4:+32893160 MsG0480020051.01.T01:CDS
ATCGAATGTTGCACCCTAGA+TGG 0.405469 4:+32893415 MsG0480020051.01.T01:three_prime_UTR
TCCACGTGCCCCATGCTACT+CGG 0.406437 4:-32893481 None:intergenic
ATGGCATAAACTTCAAGTTA+AGG 0.412298 4:+32893073 MsG0480020051.01.T01:CDS
AACAGCCTAAACCGTGAAAA+CGG 0.420484 4:+32893348 MsG0480020051.01.T01:three_prime_UTR
ACAGCCTAAACCGTGAAAAC+GGG 0.421801 4:+32893349 MsG0480020051.01.T01:three_prime_UTR
TTCAAACGAGGAAAGGCTTA+TGG 0.421987 4:+32893102 MsG0480020051.01.T01:CDS
CATCCTAAGGTGCTGCTAGA+TGG 0.431445 4:-32893053 None:intergenic
TGCTCTGACCCGAGTAGCAT+GGG 0.434808 4:+32893472 MsG0480020051.01.T01:three_prime_UTR
AGATCCGAGGATTCCCGAAT+AGG 0.444375 4:+32893200 MsG0480020051.01.T01:CDS
GCATAAGCTAGTGATGCTTT+CGG 0.445942 4:-32893452 None:intergenic
GTAGTAGCGGCGAGCGAAAT+GGG 0.462413 4:+32893325 MsG0480020051.01.T01:exon
ATTTCGCTCGCCGCTACTAC+GGG 0.467066 4:-32893322 None:intergenic
CTACGCCCTTCCTCGTCTCT+GGG 0.469904 4:-32893139 None:intergenic
TAGTAAGCGACGAAATGCTT+CGG 0.471482 4:+32893159 MsG0480020051.01.T01:CDS
CTAAGATGTTTCAGTTCGCC+AGG 0.474627 4:-32893269 None:intergenic
CTACTGGACTTTCACCATCT+AGG 0.482187 4:-32893429 None:intergenic
TGGCATAAACTTCAAGTTAA+GGG 0.483508 4:+32893074 MsG0480020051.01.T01:CDS
CTTGCAAGGCTAAATACTCC+TGG 0.486111 4:+32893530 MsG0480020051.01.T01:three_prime_UTR
AACCGTGAAAACGGGGTTGT+GGG 0.493453 4:+32893357 MsG0480020051.01.T01:three_prime_UTR
TACTGGACTTTCACCATCTA+GGG 0.498528 4:-32893428 None:intergenic
AGTACAAGCGTCGTGTTGCT+AGG 0.518898 4:+32893385 MsG0480020051.01.T01:three_prime_UTR
AAACCGTGAAAACGGGGTTG+TGG 0.519102 4:+32893356 MsG0480020051.01.T01:three_prime_UTR
TTGAAGTTTATGCCATCCTA+AGG 0.526655 4:-32893066 None:intergenic
TTCCTCGTCTCTGGGTGCCT+AGG 0.527345 4:-32893131 None:intergenic
ATGCTCTGACCCGAGTAGCA+TGG 0.527664 4:+32893471 MsG0480020051.01.T01:three_prime_UTR
CCACGTGCCCCATGCTACTC+GGG 0.530741 4:-32893480 None:intergenic
CCCGAGTAGCATGGGGCACG+TGG 0.535718 4:+32893480 MsG0480020051.01.T01:three_prime_UTR
TTGACCTATTCGGGAATCCT+CGG 0.552797 4:-32893204 None:intergenic
CAGGAGTATTTAGCCTTGCA+AGG 0.561128 4:-32893529 None:intergenic
CTGCTGCTGAATTCACGAGC+AGG 0.561936 4:+32893236 MsG0480020051.01.T01:CDS
AAGGCTTATGGTGGATACCT+AGG 0.574482 4:+32893114 MsG0480020051.01.T01:CDS
TCACGGTACTACTTCACTAT+CGG 0.577439 4:-32893557 None:intergenic
TCAGCAAGGACCACCTTGCA+AGG 0.581325 4:+32893516 MsG0480020051.01.T01:three_prime_UTR
TAAACTTCAAGTTAAGGGCG+AGG 0.582357 4:+32893079 MsG0480020051.01.T01:CDS
GAATTCAGCAGCAGTTCGAA+AGG 0.585525 4:-32893227 None:intergenic
CATCTAGCAGCACCTTAGGA+TGG 0.586134 4:+32893054 MsG0480020051.01.T01:CDS
GGCGAGGTTCAAACGAGGAA+AGG 0.586700 4:+32893095 MsG0480020051.01.T01:CDS
CTAAGGTGCTGCTAGATGGA+AGG 0.592666 4:-32893049 None:intergenic
CGAGCAGGCAAGAGACAACC+TGG 0.594234 4:+32893251 MsG0480020051.01.T01:CDS
GTGGTCCTTGCTGATTCACA+CGG 0.598373 4:-32893507 None:intergenic
TTGCAAGGCTAAATACTCCT+GGG 0.600613 4:+32893531 MsG0480020051.01.T01:three_prime_UTR
AGGCACCCAGAGACGAGGAA+GGG 0.625622 4:+32893134 MsG0480020051.01.T01:CDS
TGGTCCTTGCTGATTCACAC+GGG 0.627668 4:-32893506 None:intergenic
AAACGAGGAAAGGCTTATGG+TGG 0.638319 4:+32893105 MsG0480020051.01.T01:CDS
TAGGCACCCAGAGACGAGGA+AGG 0.640061 4:+32893133 MsG0480020051.01.T01:CDS
CAGCCTAAACCGTGAAAACG+GGG 0.641502 4:+32893350 MsG0480020051.01.T01:three_prime_UTR
TGAAAATAAGCATAGATCCG+AGG 0.646966 4:+32893187 MsG0480020051.01.T01:CDS
TACCTAGGCACCCAGAGACG+AGG 0.649829 4:+32893129 MsG0480020051.01.T01:CDS
TACTTCACTATCGGTCACCC+AGG 0.651157 4:-32893548 None:intergenic
TGAAACATCTTAGTAGCCAG+AGG 0.653782 4:+32893279 MsG0480020051.01.T01:CDS
GAATCCCGTGTGAATCAGCA+AGG 0.662500 4:+32893502 MsG0480020051.01.T01:three_prime_UTR
AAAAGCGATTCCCGTAGTAG+CGG 0.670785 4:+32893312 MsG0480020051.01.T01:exon
GTAAGCGACGAAATGCTTCG+GGG 0.688898 4:+32893161 MsG0480020051.01.T01:CDS
GCTCTGACCCGAGTAGCATG+GGG 0.693784 4:+32893473 MsG0480020051.01.T01:three_prime_UTR
GAGTATTTAGCCTTGCAAGG+TGG 0.697425 4:-32893526 None:intergenic
TTAAGGGCGAGGTTCAAACG+AGG 0.748793 4:+32893090 MsG0480020051.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATGGCATAAACTTCAAGTTA+AGG + Chr4:32893073-32893092 MsG0480020051.01.T01:CDS 30.0%
! TGGCATAAACTTCAAGTTAA+GGG + Chr4:32893074-32893093 MsG0480020051.01.T01:CDS 30.0%
TGAAAATAAGCATAGATCCG+AGG + Chr4:32893187-32893206 MsG0480020051.01.T01:CDS 35.0%
TTGAAGTTTATGCCATCCTA+AGG - Chr4:32893069-32893088 None:intergenic 35.0%
AACAGCCTAAACCGTGAAAA+CGG + Chr4:32893348-32893367 MsG0480020051.01.T01:three_prime_UTR 40.0%
GCATAAGCTAGTGATGCTTT+CGG - Chr4:32893455-32893474 None:intergenic 40.0%
GTTCGAAAGGTTGACCTATT+CGG - Chr4:32893217-32893236 None:intergenic 40.0%
TACTGGACTTTCACCATCTA+GGG - Chr4:32893431-32893450 None:intergenic 40.0%
TAGTAAGCGACGAAATGCTT+CGG + Chr4:32893159-32893178 MsG0480020051.01.T01:CDS 40.0%
TGAAACATCTTAGTAGCCAG+AGG + Chr4:32893279-32893298 MsG0480020051.01.T01:CDS 40.0%
TTCAAACGAGGAAAGGCTTA+TGG + Chr4:32893102-32893121 MsG0480020051.01.T01:CDS 40.0%
TTCGAAAGGTTGACCTATTC+GGG - Chr4:32893216-32893235 None:intergenic 40.0%
TTGCAAGGCTAAATACTCCT+GGG + Chr4:32893531-32893550 MsG0480020051.01.T01:three_prime_UTR 40.0%
! GCTTTTGCTTTCTTTTCCTC+TGG - Chr4:32893298-32893317 None:intergenic 40.0%
! TAAACTTCAAGTTAAGGGCG+AGG + Chr4:32893079-32893098 MsG0480020051.01.T01:CDS 40.0%
AAAAGCGATTCCCGTAGTAG+CGG + Chr4:32893312-32893331 MsG0480020051.01.T01:exon 45.0%
AAACGAGGAAAGGCTTATGG+TGG + Chr4:32893105-32893124 MsG0480020051.01.T01:CDS 45.0%
ACAGCCTAAACCGTGAAAAC+GGG + Chr4:32893349-32893368 MsG0480020051.01.T01:three_prime_UTR 45.0%
AGTAAGCGACGAAATGCTTC+GGG + Chr4:32893160-32893179 MsG0480020051.01.T01:CDS 45.0%
ATCGAATGTTGCACCCTAGA+TGG + Chr4:32893415-32893434 MsG0480020051.01.T01:three_prime_UTR 45.0%
CTAAGATGTTTCAGTTCGCC+AGG - Chr4:32893272-32893291 None:intergenic 45.0%
CTACTGGACTTTCACCATCT+AGG - Chr4:32893432-32893451 None:intergenic 45.0%
CTTGCAAGGCTAAATACTCC+TGG + Chr4:32893530-32893549 MsG0480020051.01.T01:three_prime_UTR 45.0%
GAATTCAGCAGCAGTTCGAA+AGG - Chr4:32893230-32893249 None:intergenic 45.0%
TTGACCTATTCGGGAATCCT+CGG - Chr4:32893207-32893226 None:intergenic 45.0%
!! AAGGCTTATGGTGGATACCT+AGG + Chr4:32893114-32893133 MsG0480020051.01.T01:CDS 45.0%
!! CAGGAGTATTTAGCCTTGCA+AGG - Chr4:32893532-32893551 None:intergenic 45.0%
!! GAGTATTTAGCCTTGCAAGG+TGG - Chr4:32893529-32893548 None:intergenic 45.0%
AAACCGTGAAAACGGGGTTG+TGG + Chr4:32893356-32893375 MsG0480020051.01.T01:three_prime_UTR 50.0%
AACCGTGAAAACGGGGTTGT+GGG + Chr4:32893357-32893376 MsG0480020051.01.T01:three_prime_UTR 50.0%
AGATCCGAGGATTCCCGAAT+AGG + Chr4:32893200-32893219 MsG0480020051.01.T01:CDS 50.0%
CAGCCTAAACCGTGAAAACG+GGG + Chr4:32893350-32893369 MsG0480020051.01.T01:three_prime_UTR 50.0%
CATCTAGCAGCACCTTAGGA+TGG + Chr4:32893054-32893073 MsG0480020051.01.T01:CDS 50.0%
CTAGTGATGCTTTCGGCTAC+TGG - Chr4:32893448-32893467 None:intergenic 50.0%
CTTCCATCTAGCAGCACCTT+AGG + Chr4:32893050-32893069 MsG0480020051.01.T01:CDS 50.0%
GAATCCCGTGTGAATCAGCA+AGG + Chr4:32893502-32893521 MsG0480020051.01.T01:three_prime_UTR 50.0%
GTAAGCGACGAAATGCTTCG+GGG + Chr4:32893161-32893180 MsG0480020051.01.T01:CDS 50.0%
TACTTCACTATCGGTCACCC+AGG - Chr4:32893551-32893570 None:intergenic 50.0%
TTAAGGGCGAGGTTCAAACG+AGG + Chr4:32893090-32893109 MsG0480020051.01.T01:CDS 50.0%
! AGTACAAGCGTCGTGTTGCT+AGG + Chr4:32893385-32893404 MsG0480020051.01.T01:three_prime_UTR 50.0%
! CAACCCCGTTTTCACGGTTT+AGG - Chr4:32893356-32893375 None:intergenic 50.0%
!! CATCCTAAGGTGCTGCTAGA+TGG - Chr4:32893056-32893075 None:intergenic 50.0%
!! CTAAGGTGCTGCTAGATGGA+AGG - Chr4:32893052-32893071 None:intergenic 50.0%
!! GTGGTCCTTGCTGATTCACA+CGG - Chr4:32893510-32893529 None:intergenic 50.0%
!! TGGTCCTTGCTGATTCACAC+GGG - Chr4:32893509-32893528 None:intergenic 50.0%
ATGCTCTGACCCGAGTAGCA+TGG + Chr4:32893471-32893490 MsG0480020051.01.T01:three_prime_UTR 55.0%
ATTTCGCTCGCCGCTACTAC+GGG - Chr4:32893325-32893344 None:intergenic 55.0%
CATTTCGCTCGCCGCTACTA+CGG - Chr4:32893326-32893345 None:intergenic 55.0%
CTGCTGCTGAATTCACGAGC+AGG + Chr4:32893236-32893255 MsG0480020051.01.T01:CDS 55.0%
GGCGAGGTTCAAACGAGGAA+AGG + Chr4:32893095-32893114 MsG0480020051.01.T01:CDS 55.0%
GTAGTAGCGGCGAGCGAAAT+GGG + Chr4:32893325-32893344 MsG0480020051.01.T01:exon 55.0%
TCAGCAAGGACCACCTTGCA+AGG + Chr4:32893516-32893535 MsG0480020051.01.T01:three_prime_UTR 55.0%
TGCTCTGACCCGAGTAGCAT+GGG + Chr4:32893472-32893491 MsG0480020051.01.T01:three_prime_UTR 55.0%
! CTCCCACAACCCCGTTTTCA+CGG - Chr4:32893362-32893381 None:intergenic 55.0%
ACTACGCCCTTCCTCGTCTC+TGG - Chr4:32893143-32893162 None:intergenic 60.0%
AGGCACCCAGAGACGAGGAA+GGG + Chr4:32893134-32893153 MsG0480020051.01.T01:CDS 60.0%
CGAGCAGGCAAGAGACAACC+TGG + Chr4:32893251-32893270 MsG0480020051.01.T01:CDS 60.0%
CGTAGTAGCGGCGAGCGAAA+TGG + Chr4:32893324-32893343 MsG0480020051.01.T01:exon 60.0%
CTACGCCCTTCCTCGTCTCT+GGG - Chr4:32893142-32893161 None:intergenic 60.0%
GCTCTGACCCGAGTAGCATG+GGG + Chr4:32893473-32893492 MsG0480020051.01.T01:three_prime_UTR 60.0%
TACCTAGGCACCCAGAGACG+AGG + Chr4:32893129-32893148 MsG0480020051.01.T01:CDS 60.0%
TAGGCACCCAGAGACGAGGA+AGG + Chr4:32893133-32893152 MsG0480020051.01.T01:CDS 60.0%
TCCACGTGCCCCATGCTACT+CGG - Chr4:32893484-32893503 None:intergenic 60.0%
TTCCTCGTCTCTGGGTGCCT+AGG - Chr4:32893134-32893153 None:intergenic 60.0%
CCACGTGCCCCATGCTACTC+GGG - Chr4:32893483-32893502 None:intergenic 65.0%
CCCGAGTAGCATGGGGCACG+TGG + Chr4:32893480-32893499 MsG0480020051.01.T01:three_prime_UTR 70.0%
Chromosome Type Strat End Strand Name
Chr4 gene 32893032 32893572 32893032 ID=MsG0480020051.01;Name=MsG0480020051.01
Chr4 mRNA 32893032 32893572 32893032 ID=MsG0480020051.01.T01;Parent=MsG0480020051.01;Name=MsG0480020051.01.T01;_AED=0.37;_eAED=0.37;_QI=0|-1|0|1|-1|0|1|244|98
Chr4 exon 32893032 32893572 32893032 ID=MsG0480020051.01.T01:exon:6022;Parent=MsG0480020051.01.T01
Chr4 CDS 32893032 32893328 32893032 ID=MsG0480020051.01.T01:cds;Parent=MsG0480020051.01.T01
Chr4 three_prime_UTR 32893329 32893572 32893329 ID=MsG0480020051.01.T01:three_prime_utr;Parent=MsG0480020051.01.T01
Gene Sequence

>MsG0480020051.01.T01

ATGGACGTTGATAAGATCCTTCCATCTAGCAGCACCTTAGGATGGCATAAACTTCAAGTTAAGGGCGAGGTTCAAACGAGGAAAGGCTTATGGTGGATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGTAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAGCATAGATCCGAGGATTCCCGAATAGGTCAACCTTTCGAACTGCTGCTGAATTCACGAGCAGGCAAGAGACAACCTGGCGAACTGAAACATCTTAGTAGCCAGAGGAAAAGAAAGCAAAAGCGATTCCCGTAG

Protein sequence

>MsG0480020051.01.T01

MDVDKILPSSSTLGWHKLQVKGEVQTRKGLWWIPRHPETRKGVVSDEMLRGVENKHRSEDSRIGQPFELLLNSRAGKRQPGELKHLSSQRKRKQKRFP*