AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580025009.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580025009.01.T01 MTR_5g021090 57.862 159 4 2 1 126 1 129 5.89e-51 158
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580025009.01.T01 AT1G77370 37.500 152 32 2 8 126 9 130 1.81e-21 83.6
MsG0580025009.01.T01 AT1G77370 46.667 90 18 1 22 111 23 82 4.55e-19 77.8

Find 15 sgRNAs with CRISPR-Local

Find 86 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCAATTATTATCACGTGTT+AGG 0.246082 5:+12780961 MsG0580025009.01.T01:CDS
GGTTCCATTCTCAAGCAAAA+AGG 0.276134 5:-12780829 None:intergenic
TACGTACGGGCAATAGGATT+TGG 0.352701 5:-12780919 None:intergenic
TATATATACGTACGGGCAAT+AGG 0.386425 5:-12780925 None:intergenic
TCAATTATTATCACGTGTTA+GGG 0.423602 5:+12780962 MsG0580025009.01.T01:CDS
GGAAACTGAATTTGAAGCTT+CGG 0.429054 5:-12780850 None:intergenic
AAATCAAGCTCAACAACAAA+AGG 0.509148 5:-12781071 None:intergenic
GGAGAAGATGGTGATTCTGT+TGG 0.515760 5:-12780898 None:intergenic
GCAATAGGATTTGGAGAAGA+TGG 0.516584 5:-12780910 None:intergenic
AAGAGAGTTATATATACGTA+CGG 0.533974 5:-12780933 None:intergenic
GTTTCTGCAATTCACCACTC+TGG 0.562376 5:-12782660 None:intergenic
AGAGAGTTATATATACGTAC+GGG 0.615867 5:-12780932 None:intergenic
GAAGAATGAAGATGTTACAG+TGG 0.663384 5:+12780769 None:intergenic
GTTGTTGAGCTTGATTTGCG+AGG 0.668245 5:+12781077 MsG0580025009.01.T01:CDS
CTCAGTGCTGCAGTCCAGAG+TGG 0.673667 5:+12782646 MsG0580025009.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATAATCTATATACATAAGA+GGG - Chr5:12781379-12781398 None:intergenic 15.0%
!! TAATAATCTATATACATAAG+AGG - Chr5:12781380-12781399 None:intergenic 15.0%
!! TATCTATATGTCATTATAAA+AGG + Chr5:12782559-12782578 MsG0580025009.01.T01:intron 15.0%
!!! AAGGGAATATTTATTATTTT+CGG - Chr5:12782386-12782405 None:intergenic 15.0%
!!! TATGTGTTTTGATATTTTTA+AGG + Chr5:12781283-12781302 MsG0580025009.01.T01:intron 15.0%
!!! TTTTTTTCCATATACTTTAA+AGG + Chr5:12782477-12782496 MsG0580025009.01.T01:intron 15.0%
!! AAATAACCTATATACATAAG+AGG - Chr5:12781465-12781484 None:intergenic 20.0%
!! AATAACCTATATACATAAGA+GGG - Chr5:12781464-12781483 None:intergenic 20.0%
!! CTCTATATCCAAAAATATAA+GGG + Chr5:12782300-12782319 MsG0580025009.01.T01:intron 20.0%
!! TAAACTATATGAAAATAACG+AGG + Chr5:12782247-12782266 MsG0580025009.01.T01:intron 20.0%
!! TATGTCATTATAAAAGGTTA+AGG + Chr5:12782565-12782584 MsG0580025009.01.T01:intron 20.0%
!! TCATATAGTTTAAGAACTAA+AGG - Chr5:12782239-12782258 None:intergenic 20.0%
!!! ATTAAGTTGTTTATCAAACA+AGG - Chr5:12781146-12781165 None:intergenic 20.0%
!!! CTTATATTTTTGGATATAGA+GGG - Chr5:12782301-12782320 None:intergenic 20.0%
!!! TATTTAGCCTTTAAAGTATA+TGG - Chr5:12782487-12782506 None:intergenic 20.0%
!!! TGATAGAAAATTTTTATGAG+AGG + Chr5:12782352-12782371 MsG0580025009.01.T01:intron 20.0%
! AAACAAAAAAACTGCTTTCA+TGG + Chr5:12781563-12781582 MsG0580025009.01.T01:intron 25.0%
! AAGAGAGTTATATATACGTA+CGG - Chr5:12780936-12780955 None:intergenic 25.0%
! AATGATAACAGTTGTCTATT+TGG - Chr5:12781696-12781715 None:intergenic 25.0%
! ATGAAATTAATATGCTCTGT+CGG + Chr5:12781193-12781212 MsG0580025009.01.T01:intron 25.0%
! ATTCAAATAGTATACTTAGC+CGG - Chr5:12781343-12781362 None:intergenic 25.0%
! CCTCTATATCCAAAAATATA+AGG + Chr5:12782299-12782318 MsG0580025009.01.T01:intron 25.0%
! TAATGAAGGGATTAAATTGA+AGG + Chr5:12782520-12782539 MsG0580025009.01.T01:intron 25.0%
! TATATCCAAAAATATAAGGG+TGG + Chr5:12782303-12782322 MsG0580025009.01.T01:intron 25.0%
! TATGAAAATAACGAGGAATT+TGG + Chr5:12782254-12782273 MsG0580025009.01.T01:intron 25.0%
! TCAATTATTATCACGTGTTA+GGG + Chr5:12780962-12780981 MsG0580025009.01.T01:CDS 25.0%
! TGTGTAAAATAATTGTACAC+CGG + Chr5:12781321-12781340 MsG0580025009.01.T01:intron 25.0%
! TTCAATTATTATCACGTGTT+AGG + Chr5:12780961-12780980 MsG0580025009.01.T01:CDS 25.0%
!! ACAAATTTTCACATACTCAA+GGG - Chr5:12782404-12782423 None:intergenic 25.0%
!! ATACTTTAAAGGCTAAATAG+AGG + Chr5:12782488-12782507 MsG0580025009.01.T01:intron 25.0%
!! TTAAGTTGTTTATCCAAACA+AGG - Chr5:12781965-12781984 None:intergenic 25.0%
!!! CCTTATATTTTTGGATATAG+AGG - Chr5:12782302-12782321 None:intergenic 25.0%
AAATCAAGCTCAACAACAAA+AGG - Chr5:12781074-12781093 None:intergenic 30.0%
AGAGAGTTATATATACGTAC+GGG - Chr5:12780935-12780954 None:intergenic 30.0%
ATAGATAGAGAAACACAAAG+AGG - Chr5:12782593-12782612 None:intergenic 30.0%
CATTAGTACTTAAGATGCTA+GGG - Chr5:12782436-12782455 None:intergenic 30.0%
CTTAAGTACTAATGAGACAA+GGG + Chr5:12782442-12782461 MsG0580025009.01.T01:intron 30.0%
TAACAGTTGTCTATTTGGAT+TGG - Chr5:12781691-12781710 None:intergenic 30.0%
TAGATAGAGAAACACAAAGA+GGG - Chr5:12782592-12782611 None:intergenic 30.0%
TCATTAGTACTTAAGATGCT+AGG - Chr5:12782437-12782456 None:intergenic 30.0%
TCTTAAGTACTAATGAGACA+AGG + Chr5:12782441-12782460 MsG0580025009.01.T01:intron 30.0%
TGATACCCTCTTATGTATAT+AGG + Chr5:12781371-12781390 MsG0580025009.01.T01:intron 30.0%
TTAAGTACTAATGAGACAAG+GGG + Chr5:12782443-12782462 MsG0580025009.01.T01:intron 30.0%
TTTCATACTTAGTCCTTGTT+TGG + Chr5:12781949-12781968 MsG0580025009.01.T01:intron 30.0%
TTTGTGCTTGTTTAGATGAT+GGG + Chr5:12781748-12781767 MsG0580025009.01.T01:intron 30.0%
! AATGTTTCTCTGATTTTCGT+AGG + Chr5:12781003-12781022 MsG0580025009.01.T01:CDS 30.0%
! ACTTTCCACCCTTATATTTT+TGG - Chr5:12782311-12782330 None:intergenic 30.0%
! AGAGGAGATAATGATAATGA+AGG + Chr5:12782506-12782525 MsG0580025009.01.T01:intron 30.0%
! GACAAATTTTCACATACTCA+AGG - Chr5:12782405-12782424 None:intergenic 30.0%
! GAGGAGATAATGATAATGAA+GGG + Chr5:12782507-12782526 MsG0580025009.01.T01:intron 30.0%
! TTTTGTGCTTGTTTAGATGA+TGG + Chr5:12781747-12781766 MsG0580025009.01.T01:intron 30.0%
!! TATATACATAAGAGGGTATC+AGG - Chr5:12781372-12781391 None:intergenic 30.0%
!! TCTTAGACTTTTGCTTTTCT+GGG + Chr5:12781875-12781894 MsG0580025009.01.T01:intron 30.0%
!! TTCTTAGACTTTTGCTTTTC+TGG + Chr5:12781874-12781893 MsG0580025009.01.T01:intron 30.0%
CTCAAGCAAAAAGGGTAAAA+CGG - Chr5:12780823-12780842 None:intergenic 35.0%
GTTCCATTCTCAAGCAAAAA+GGG - Chr5:12780831-12780850 None:intergenic 35.0%
TAACGAGACAACACAATCAT+CGG - Chr5:12781242-12781261 None:intergenic 35.0%
TATATATACGTACGGGCAAT+AGG - Chr5:12780928-12780947 None:intergenic 35.0%
TTAAGATGCTAGGGATTAAC+AGG - Chr5:12782427-12782446 None:intergenic 35.0%
! ATTGTTTTCGCGTAAGCTAT+AGG + Chr5:12781501-12781520 MsG0580025009.01.T01:intron 35.0%
! GGAAACTGAATTTGAAGCTT+CGG - Chr5:12780853-12780872 None:intergenic 35.0%
! TTACCCTTTTTGCTTGAGAA+TGG + Chr5:12780825-12780844 MsG0580025009.01.T01:CDS 35.0%
! TTTGTCTATGGGAAGCATAT+TGG + Chr5:12781828-12781847 MsG0580025009.01.T01:intron 35.0%
!! AGATGATGGGTATCAAATTC+AGG + Chr5:12781761-12781780 MsG0580025009.01.T01:intron 35.0%
!! GATGATGGGTATCAAATTCA+GGG + Chr5:12781762-12781781 MsG0580025009.01.T01:intron 35.0%
!! GATTGCGTTTTGAACAAAAG+CGG - Chr5:12780874-12780893 None:intergenic 35.0%
GCAATAGGATTTGGAGAAGA+TGG - Chr5:12780913-12780932 None:intergenic 40.0%
GGTGTTCTTCTGGATTTGAT+TGG + Chr5:12781783-12781802 MsG0580025009.01.T01:intron 40.0%
GGTTCCATTCTCAAGCAAAA+AGG - Chr5:12780832-12780851 None:intergenic 40.0%
GTGGAAAGTGAGAGAAGATA+GGG + Chr5:12782322-12782341 MsG0580025009.01.T01:intron 40.0%
TCCCACAAGTGTTTGTCTAT+GGG + Chr5:12781817-12781836 MsG0580025009.01.T01:intron 40.0%
TCCCATAGACAAACACTTGT+GGG - Chr5:12781821-12781840 None:intergenic 40.0%
TTCCCATAGACAAACACTTG+TGG - Chr5:12781822-12781841 None:intergenic 40.0%
! AAGCATATTGGTGGATCAGA+TGG + Chr5:12781840-12781859 MsG0580025009.01.T01:intron 40.0%
! TCAAATTCAGGGTGTTCTTC+TGG + Chr5:12781773-12781792 MsG0580025009.01.T01:intron 40.0%
ACTGCTTTCATGGTCTGTCA+TGG + Chr5:12781573-12781592 MsG0580025009.01.T01:intron 45.0%
AGGGATGCATGTTTGAGAGA+GGG - Chr5:12782282-12782301 None:intergenic 45.0%
GGAGAAGATGGTGATTCTGT+TGG - Chr5:12780901-12780920 None:intergenic 45.0%
GGTGGAAAGTGAGAGAAGAT+AGG + Chr5:12782321-12782340 MsG0580025009.01.T01:intron 45.0%
GTCCCACAAGTGTTTGTCTA+TGG + Chr5:12781816-12781835 MsG0580025009.01.T01:intron 45.0%
GTTTCTGCAATTCACCACTC+TGG - Chr5:12782663-12782682 None:intergenic 45.0%
TACGTACGGGCAATAGGATT+TGG - Chr5:12780922-12780941 None:intergenic 45.0%
! GTCTATGGGAAGCATATTGG+TGG + Chr5:12781831-12781850 MsG0580025009.01.T01:intron 45.0%
!! GTTGTTGAGCTTGATTTGCG+AGG + Chr5:12781077-12781096 MsG0580025009.01.T01:CDS 45.0%
GAGGGATGCATGTTTGAGAG+AGG - Chr5:12782283-12782302 None:intergenic 50.0%
CTCAGTGCTGCAGTCCAGAG+TGG + Chr5:12782646-12782665 MsG0580025009.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr5 gene 12780774 12782699 12780774 ID=MsG0580025009.01;Name=MsG0580025009.01
Chr5 mRNA 12780774 12782699 12780774 ID=MsG0580025009.01.T01;Parent=MsG0580025009.01;Name=MsG0580025009.01.T01;_AED=0.50;_eAED=0.61;_QI=0|0|0|1|0|0|2|0|126
Chr5 exon 12780774 12781098 12780774 ID=MsG0580025009.01.T01:exon:3351;Parent=MsG0580025009.01.T01
Chr5 exon 12782644 12782699 12782644 ID=MsG0580025009.01.T01:exon:3352;Parent=MsG0580025009.01.T01
Chr5 CDS 12780774 12781098 12780774 ID=MsG0580025009.01.T01:cds;Parent=MsG0580025009.01.T01
Chr5 CDS 12782644 12782699 12782644 ID=MsG0580025009.01.T01:cds;Parent=MsG0580025009.01.T01
Gene Sequence

>MsG0580025009.01.T01

ATGAAGATGTTACAGTGGAGCATGTTCATAACTCTCACGTTATTGACCGTTTTACCCTTTTTGCTTGAGAATGGAACCGAAGCTTCAAATTCAGTTTCCGCTTTTGTTCAAAACGCAATCTACTCCAACAGAATCACCATCTTCTCCAAATCCTATTGCCCGTACGTATATATAACTCTCTTCAATTTTCAATTATTATCACGTGTTAGGGTTTGTTCAATTTCATCACAATGTTTCTCTGATTTTCGTAGGTATTGTTTACGTGCTAAACGTGTTTTTGTTGAACTAAATGAGCAACCTTTTGTTGTTGAGCTTGATTTGCGAGATCTCAGTGCTGCAGTCCAGAGTGGTGAATTGCAGAAACTTCTCAAATCAAGTTGA

Protein sequence

>MsG0580025009.01.T01

MKMLQWSMFITLTLLTVLPFLLENGTEASNSVSAFVQNAIYSNRITIFSKSYCPYVYITLFNFQLLSRVRVCSISSQCFSDFRRYCLRAKRVFVELNEQPFVVELDLRDLSAAVQSGELQKLLKSS*