AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380016723.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380016723.01.T01 MTR_3g094080 99.415 171 1 0 1 171 1 171 5.88e-127 353
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380016723.01.T01 AT3G56290 60.920 174 62 2 1 170 1 172 5.24e-70 209

Find 48 sgRNAs with CRISPR-Local

Find 70 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCTCAAGAACATACATAAA+TGG 0.182001 3:-87056851 MsG0380016723.01.T01:exon
TTCTTCCTTCTTCTCTTGTT+TGG 0.250102 3:+87056711 None:intergenic
GGAAGTTCCCTTTGGCCATT+AGG 0.300224 3:-87055894 MsG0380016723.01.T01:three_prime_UTR
AACAAATGGAGAATTGATTC+AGG 0.315306 3:-87055844 MsG0380016723.01.T01:three_prime_UTR
TAAGAATGCAACAGTTCATT+TGG 0.340491 3:+87055998 None:intergenic
GCTAGAGAAGCCACAAAATC+TGG 0.342436 3:-87056595 MsG0380016723.01.T01:CDS
TTTAGTAGAAGCAAAATTGT+AGG 0.344583 3:+87055749 None:intergenic
AACATGCAAGGTGTGCAAAA+AGG 0.352645 3:-87056226 MsG0380016723.01.T01:CDS
CACTTGTCTTGCTTCACCCT+TGG 0.361736 3:+87056200 None:intergenic
CTTTATCATTATATCTTGTC+TGG 0.378103 3:-87055954 MsG0380016723.01.T01:three_prime_UTR
CAGACAAGATATAATGATAA+AGG 0.383938 3:+87055955 None:intergenic
TGTGCAGAGAAGGCAAAATC+TGG 0.391867 3:-87056147 MsG0380016723.01.T01:CDS
GGAGCTCTTAGAAGGAAAAT+TGG 0.394746 3:-87056454 MsG0380016723.01.T01:CDS
GAGAATATGTTGAAGAGGGT+TGG 0.421247 3:-87056257 MsG0380016723.01.T01:CDS
ATAGTTGTGTCTCAAACAAA+TGG 0.426309 3:-87055858 MsG0380016723.01.T01:three_prime_UTR
AGAATATGTTGAAGAGGGTT+GGG 0.437524 3:-87056256 MsG0380016723.01.T01:CDS
GCTCAAGAACATACATAAAT+GGG 0.443542 3:-87056850 MsG0380016723.01.T01:exon
CCATTGGTGGAAGTTCCCTT+TGG 0.444226 3:-87055902 MsG0380016723.01.T01:three_prime_UTR
TGCAGTATGGAGCTCTTAGA+AGG 0.445617 3:-87056462 MsG0380016723.01.T01:intron
TGAGCATCTTGTGCGGATCT+TGG 0.446163 3:+87056631 None:intergenic
AACATACATAAATGGGTCTT+GGG 0.452482 3:-87056843 MsG0380016723.01.T01:exon
GAACATACATAAATGGGTCT+TGG 0.457157 3:-87056844 MsG0380016723.01.T01:exon
TTCAGCCAAACAAGAGAAGA+AGG 0.459242 3:-87056716 MsG0380016723.01.T01:CDS
ATAAAATTAAAATCACCTAA+TGG 0.470916 3:+87055879 None:intergenic
GTATAATAAGGAGGGGTCAA+TGG 0.496878 3:+87056814 None:intergenic
GAAAATTGGTGGGACTTACA+AGG 0.499480 3:-87056440 MsG0380016723.01.T01:CDS
GCAAGACAAGTGGACAAGCT+TGG 0.505588 3:-87056189 MsG0380016723.01.T01:CDS
AATCTGGAGAACAAATGAGC+AGG 0.519508 3:-87056579 MsG0380016723.01.T01:CDS
CAAAGGGAACTTCCACCAAT+GGG 0.525664 3:+87055903 None:intergenic
AAAATCACCTAATGGCCAAA+GGG 0.529684 3:+87055887 None:intergenic
CTCTTAGAAGGAAAATTGGT+GGG 0.533115 3:-87056450 MsG0380016723.01.T01:CDS
TGGTCATAAAGAGAAGAGTC+TGG 0.537908 3:+87056113 None:intergenic
AGAACAAATGAGCAGGGAGC+AGG 0.543107 3:-87056572 MsG0380016723.01.T01:intron
GGATGGAGAATATGTTGAAG+AGG 0.544093 3:-87056262 MsG0380016723.01.T01:CDS
CCAAAGGGAACTTCCACCAA+TGG 0.558456 3:+87055902 None:intergenic
TCATGTAGCATGTGCAGAGA+AGG 0.566077 3:-87056157 MsG0380016723.01.T01:CDS
ATCTGGAGAACAAATGAGCA+GGG 0.576834 3:-87056578 MsG0380016723.01.T01:CDS
TAAAATCACCTAATGGCCAA+AGG 0.580336 3:+87055886 None:intergenic
AGATGCTCAGCTTATACAAG+AGG 0.596458 3:-87056617 MsG0380016723.01.T01:CDS
TCCACTACAATACCATGTCA+TGG 0.604222 3:+87056093 None:intergenic
GATGGAGAATATGTTGAAGA+GGG 0.605246 3:-87056261 MsG0380016723.01.T01:CDS
GCTCTTAGAAGGAAAATTGG+TGG 0.606049 3:-87056451 MsG0380016723.01.T01:CDS
AAAACTTGTATAATAAGGAG+GGG 0.613562 3:+87056807 None:intergenic
CAAGGGTGAAGCAAGACAAG+TGG 0.622923 3:-87056199 MsG0380016723.01.T01:CDS
ACCATGACATGGTATTGTAG+TGG 0.643236 3:-87056094 MsG0380016723.01.T01:three_prime_UTR
TTCTCTTTATGACCATGACA+TGG 0.643568 3:-87056105 MsG0380016723.01.T01:exon
TTGGGTAGACAAAACATGCA+AGG 0.652458 3:-87056238 MsG0380016723.01.T01:CDS
TATAAGCTGAGCATCTTGTG+CGG 0.655921 3:+87056624 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAATCCAATTTAAAAAAATT+AGG + Chr3:87056836-87056855 None:intergenic 10.0%
!! AAGGAAAATAAAAATTTGTA+TGG + Chr3:87056645-87056664 None:intergenic 15.0%
!! ATAAAATTAAAATCACCTAA+TGG + Chr3:87056740-87056759 None:intergenic 15.0%
!!! GAATGAAATTTTAAAGTATA+TGG - Chr3:87056580-87056599 MsG0380016723.01.T01:CDS 15.0%
!!! TTGTCCTAATTTTTTTAAAT+TGG - Chr3:87056829-87056848 MsG0380016723.01.T01:CDS 15.0%
!!! TTTTTTTAAATAATGCAGTA+TGG - Chr3:87056141-87056160 MsG0380016723.01.T01:CDS 15.0%
!! AAAAACTTGTATAATAAGGA+GGG + Chr3:87055813-87055832 None:intergenic 20.0%
!! GAAGAAAAACTTGTATAATA+AGG + Chr3:87055817-87055836 None:intergenic 20.0%
!!! AATTATAGGAGTATATTGTT+TGG - Chr3:87056287-87056306 MsG0380016723.01.T01:intron 20.0%
!!! TTTTTCAAATCTTATGTTGA+AGG - Chr3:87056201-87056220 MsG0380016723.01.T01:CDS 20.0%
! AAAACTTGTATAATAAGGAG+GGG + Chr3:87055812-87055831 None:intergenic 25.0%
! CAGACAAGATATAATGATAA+AGG + Chr3:87056664-87056683 None:intergenic 25.0%
! CTTTATCATTATATCTTGTC+TGG - Chr3:87056662-87056681 MsG0380016723.01.T01:CDS 25.0%
! GAAAAACTTGTATAATAAGG+AGG + Chr3:87055814-87055833 None:intergenic 25.0%
!! CATGTGATTAGTTGAATTAT+AGG - Chr3:87056273-87056292 MsG0380016723.01.T01:intron 25.0%
AACATACATAAATGGGTCTT+GGG - Chr3:87055773-87055792 MsG0380016723.01.T01:three_prime_UTR 30.0%
ATAGTTGTGTCTCAAACAAA+TGG - Chr3:87056758-87056777 MsG0380016723.01.T01:CDS 30.0%
GCTCAAGAACATACATAAAT+GGG - Chr3:87055766-87055785 MsG0380016723.01.T01:three_prime_UTR 30.0%
TAAGAATGCAACAGTTCATT+TGG + Chr3:87056621-87056640 None:intergenic 30.0%
TGCTCAAGAACATACATAAA+TGG - Chr3:87055765-87055784 MsG0380016723.01.T01:three_prime_UTR 30.0%
! AACAAATGGAGAATTGATTC+AGG - Chr3:87056772-87056791 MsG0380016723.01.T01:CDS 30.0%
! AGTTTTTCTTCAAAGTCATC+AGG - Chr3:87055826-87055845 MsG0380016723.01.T01:three_prime_UTR 30.0%
! GTATATGGTAGTTTTCTCTT+TGG - Chr3:87056595-87056614 MsG0380016723.01.T01:CDS 30.0%
AAAATCACCTAATGGCCAAA+GGG + Chr3:87056732-87056751 None:intergenic 35.0%
AGAATATGTTGAAGAGGGTT+GGG - Chr3:87056360-87056379 MsG0380016723.01.T01:intron 35.0%
CTCTTAGAAGGAAAATTGGT+GGG - Chr3:87056166-87056185 MsG0380016723.01.T01:CDS 35.0%
GAACATACATAAATGGGTCT+TGG - Chr3:87055772-87055791 MsG0380016723.01.T01:three_prime_UTR 35.0%
GATGGAGAATATGTTGAAGA+GGG - Chr3:87056355-87056374 MsG0380016723.01.T01:intron 35.0%
TAAAATCACCTAATGGCCAA+AGG + Chr3:87056733-87056752 None:intergenic 35.0%
TTCTCTTTATGACCATGACA+TGG - Chr3:87056511-87056530 MsG0380016723.01.T01:intron 35.0%
TTCTTCCTTCTTCTCTTGTT+TGG + Chr3:87055908-87055927 None:intergenic 35.0%
! AAGCCTACAATTTTGCTTCT+AGG - Chr3:87056864-87056883 MsG0380016723.01.T01:five_prime_UTR 35.0%
! CATTTGTTCTCCAGATTTTG+TGG + Chr3:87056034-87056053 None:intergenic 35.0%
! CTTGTCTGGTAGACTTTTTA+GGG - Chr3:87056676-87056695 MsG0380016723.01.T01:CDS 35.0%
! TCTTGTCTGGTAGACTTTTT+AGG - Chr3:87056675-87056694 MsG0380016723.01.T01:CDS 35.0%
!!! GTGTTTTGTTTTGAACCCAT+TGG - Chr3:87056698-87056717 MsG0380016723.01.T01:CDS 35.0%
!!! TTTTGTTTTGAACCCATTGG+TGG - Chr3:87056701-87056720 MsG0380016723.01.T01:CDS 35.0%
AACATGCAAGGTGTGCAAAA+AGG - Chr3:87056390-87056409 MsG0380016723.01.T01:intron 40.0%
AATCTGGAGAACAAATGAGC+AGG - Chr3:87056037-87056056 MsG0380016723.01.T01:three_prime_UTR 40.0%
ACCATGACATGGTATTGTAG+TGG - Chr3:87056522-87056541 MsG0380016723.01.T01:intron 40.0%
AGATGCTCAGCTTATACAAG+AGG - Chr3:87055999-87056018 MsG0380016723.01.T01:three_prime_UTR 40.0%
ATCTGGAGAACAAATGAGCA+GGG - Chr3:87056038-87056057 MsG0380016723.01.T01:three_prime_UTR 40.0%
GAAAATTGGTGGGACTTACA+AGG - Chr3:87056176-87056195 MsG0380016723.01.T01:CDS 40.0%
GAGAATATGTTGAAGAGGGT+TGG - Chr3:87056359-87056378 MsG0380016723.01.T01:intron 40.0%
GCTCTTAGAAGGAAAATTGG+TGG - Chr3:87056165-87056184 MsG0380016723.01.T01:CDS 40.0%
GGAGCTCTTAGAAGGAAAAT+TGG - Chr3:87056162-87056181 MsG0380016723.01.T01:CDS 40.0%
GGATGGAGAATATGTTGAAG+AGG - Chr3:87056354-87056373 MsG0380016723.01.T01:intron 40.0%
GTATAATAAGGAGGGGTCAA+TGG + Chr3:87055805-87055824 None:intergenic 40.0%
TATAAGCTGAGCATCTTGTG+CGG + Chr3:87055995-87056014 None:intergenic 40.0%
TCCACTACAATACCATGTCA+TGG + Chr3:87056526-87056545 None:intergenic 40.0%
TGGTCATAAAGAGAAGAGTC+TGG + Chr3:87056506-87056525 None:intergenic 40.0%
TTCAGCCAAACAAGAGAAGA+AGG - Chr3:87055900-87055919 MsG0380016723.01.T01:three_prime_UTR 40.0%
TTGGGTAGACAAAACATGCA+AGG - Chr3:87056378-87056397 MsG0380016723.01.T01:intron 40.0%
! AATCTTGTTGTACTGAGCAG+TGG - Chr3:87056333-87056352 MsG0380016723.01.T01:intron 40.0%
CAAAGGGAACTTCCACCAAT+GGG + Chr3:87056716-87056735 None:intergenic 45.0%
GCTAGAGAAGCCACAAAATC+TGG - Chr3:87056021-87056040 MsG0380016723.01.T01:three_prime_UTR 45.0%
GTGTGCAAAAAGGACACCAA+GGG - Chr3:87056400-87056419 MsG0380016723.01.T01:intron 45.0%
TCATGTAGCATGTGCAGAGA+AGG - Chr3:87056459-87056478 MsG0380016723.01.T01:CDS 45.0%
TGCAGTATGGAGCTCTTAGA+AGG - Chr3:87056154-87056173 MsG0380016723.01.T01:CDS 45.0%
TGTGCAGAGAAGGCAAAATC+TGG - Chr3:87056469-87056488 MsG0380016723.01.T01:intron 45.0%
TTGTTGTACTGAGCAGTGGA+TGG - Chr3:87056337-87056356 MsG0380016723.01.T01:intron 45.0%
AGAACAAATGAGCAGGGAGC+AGG - Chr3:87056044-87056063 MsG0380016723.01.T01:three_prime_UTR 50.0%
CAAGGGTGAAGCAAGACAAG+TGG - Chr3:87056417-87056436 MsG0380016723.01.T01:CDS 50.0%
CACTTGTCTTGCTTCACCCT+TGG + Chr3:87056419-87056438 None:intergenic 50.0%
CCAAAGGGAACTTCCACCAA+TGG + Chr3:87056717-87056736 None:intergenic 50.0%
CCATTGGTGGAAGTTCCCTT+TGG - Chr3:87056714-87056733 MsG0380016723.01.T01:CDS 50.0%
GCAAGACAAGTGGACAAGCT+TGG - Chr3:87056427-87056446 MsG0380016723.01.T01:CDS 50.0%
GGAAGTTCCCTTTGGCCATT+AGG - Chr3:87056722-87056741 MsG0380016723.01.T01:CDS 50.0%
GGTGTGCAAAAAGGACACCA+AGG - Chr3:87056399-87056418 MsG0380016723.01.T01:intron 50.0%
TGAGCATCTTGTGCGGATCT+TGG + Chr3:87055988-87056007 None:intergenic 50.0%
Chromosome Type Strat End Strand Name
Chr3 gene 87055755 87056883 87055755 ID=MsG0380016723.01;Name=MsG0380016723.01
Chr3 mRNA 87055755 87056883 87055755 ID=MsG0380016723.01.T01;Parent=MsG0380016723.01;Name=MsG0380016723.01.T01;_AED=0.46;_eAED=0.46;_QI=29|1|1|1|1|1|3|361|171
Chr3 exon 87055755 87056285 87055755 ID=MsG0380016723.01.T01:exon:22063;Parent=MsG0380016723.01.T01
Chr3 exon 87056416 87056479 87056416 ID=MsG0380016723.01.T01:exon:22062;Parent=MsG0380016723.01.T01
Chr3 exon 87056573 87056883 87056573 ID=MsG0380016723.01.T01:exon:22061;Parent=MsG0380016723.01.T01
Chr3 five_prime_UTR 87056855 87056883 87056855 ID=MsG0380016723.01.T01:five_prime_utr;Parent=MsG0380016723.01.T01
Chr3 CDS 87056573 87056854 87056573 ID=MsG0380016723.01.T01:cds;Parent=MsG0380016723.01.T01
Chr3 CDS 87056416 87056479 87056416 ID=MsG0380016723.01.T01:cds;Parent=MsG0380016723.01.T01
Chr3 CDS 87056116 87056285 87056116 ID=MsG0380016723.01.T01:cds;Parent=MsG0380016723.01.T01
Chr3 three_prime_UTR 87055755 87056115 87055755 ID=MsG0380016723.01.T01:three_prime_utr;Parent=MsG0380016723.01.T01
Gene Sequence

>MsG0380016723.01.T01

ATGGGTCTTGGGACTTTGCCATTGACCCCTCCTTATTATACAAGTTTTTCTTCAAAGTCATCAGGACTTGTACATAAAAATACTAATAATTGCAATAGAAGCAAAAAATTCATAGTTTCAGCCAAACAAGAGAAGAAGGAAGAAGATAAGAATAAGCAATCTTTTTTTACTAGTGTAACTGATGCTCTTGATTTTGCTCAACCAAGATCCGCACAAGATGCTCAGCTTATACAAGAGGCTAGAGAAGCCACAAAATCTGGAGAACAAATGAGCAGGGAGCAGTATGGAGCTCTTAGAAGGAAAATTGGTGGGACTTACAAGGATTTTTTCAAATCTTATGTTGAAGTGGATGGAGAATATGTTGAAGAGGGTTGGGTAGACAAAACATGCAAGGTGTGCAAAAAGGACACCAAGGGTGAAGCAAGACAAGTGGACAAGCTTGGAAGATATGTTCATGTAGCATGTGCAGAGAAGGCAAAATCTGGAAACTTCTTTACCAGACTCTTCTCTTTATGA

Protein sequence

>MsG0380016723.01.T01

MGLGTLPLTPPYYTSFSSKSSGLVHKNTNNCNRSKKFIVSAKQEKKEEDKNKQSFFTSVTDALDFAQPRSAQDAQLIQEAREATKSGEQMSREQYGALRRKIGGTYKDFFKSYVEVDGEYVEEGWVDKTCKVCKKDTKGEARQVDKLGRYVHVACAEKAKSGNFFTRLFSL*