AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1264110


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1264110 MtrunA17_Chr4g0074391 82.479 234 1 1 1 234 1 194 1.27e-131 369
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1264110 AT5G13510.1 73.626 182 48 0 49 230 39 220 6.73e-102 295
Msa1264110 AT3G12370.1 59.589 146 57 1 66 209 15 160 9.53e-62 191

Find 51 sgRNAs with CRISPR-Local

Find 60 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACAACGAGTTTCGTTGTTTC+AGG 0.234422 8_2:+67505805 None:intergenic
GGGTGGGTTGAATGGGTTAA+TGG 0.255392 8_2:+67506014 None:intergenic
TATGATGTGGGTGGGTTGAA+TGG 0.273148 8_2:+67506006 None:intergenic
TCTTTCTGAAAATCTCTATA+AGG 0.284478 8_2:+67505658 None:intergenic
GATGGATAAACGGTGGGTTT+TGG 0.306620 8_2:+67505966 None:intergenic
GAAAAGTCCTTCTTCTGCTT+TGG 0.317270 8_2:-67505506 Msa1264110:CDS
CGAGATTTATGCTAATTTGT+TGG 0.337443 8_2:-67505536 Msa1264110:CDS
AGAACTTATCATGGTTCTTA+AGG 0.338473 8_2:-67505458 Msa1264110:CDS
GAAGCCTTTGTAGTTGATTC+CGG 0.344742 8_2:+67505864 None:intergenic
GAAGCTTGAAGAACAGGAAC+AGG 0.372574 8_2:-67505425 Msa1264110:CDS
GGGTTAGTATTTGAAAAGAT+TGG 0.377643 8_2:+67506040 None:intergenic
GAGATTTATGCTAATTTGTT+GGG 0.387159 8_2:-67505535 Msa1264110:CDS
GCGTGAAATTGCGGCGTTGA+TGG 0.388449 8_2:+67505948 None:intergenic
TATTTGAAAAGATTGGGTTT+TGG 0.407544 8_2:+67506047 None:intergenic
TCAAGTTTCTTAAACTCGTC+AGG 0.408323 8_2:+67505577 None:intergenic
AAGTTCTTGAAATTGTTTAA+CGG 0.413631 8_2:+67505840 None:intergenic
TTGGTTTGTATGATGTGGGT+GGG 0.413650 8_2:+67505998 None:intergenic
GGTGGGTTGAATGGGTTAAT+GGG 0.421794 8_2:+67506015 None:intergenic
TATTAAGAAGCTTGAAGAAC+AGG 0.423944 8_2:-67505431 Msa1264110:CDS
ATGATGTGGGTGGGTTGAAT+GGG 0.424540 8_2:+67506007 None:intergenic
GGTTAGTATTTGAAAAGATT+GGG 0.435588 8_2:+67506041 None:intergenic
GGTTGAATGGGTTAATGGGT+CGG 0.447317 8_2:+67506019 None:intergenic
GGTCTTGGTTTGTATGATGT+GGG 0.456359 8_2:+67505994 None:intergenic
TTGGTTTATAAAGCACTTGA+AGG 0.462572 8_2:-67505769 Msa1264110:CDS
GTTGAATGGGTTAATGGGTC+GGG 0.472813 8_2:+67506020 None:intergenic
TTTCTTTGTGCGTGAAATTG+CGG 0.473934 8_2:+67505939 None:intergenic
TTCTCTAGCAGGAGCTTGAA+TGG 0.482406 8_2:+67505477 None:intergenic
CTTGGTTTGTATGATGTGGG+TGG 0.491348 8_2:+67505997 None:intergenic
TTGCGGCGTTGATGGATAAA+CGG 0.507344 8_2:+67505956 None:intergenic
GGGTCTTGGTTTGTATGATG+TGG 0.515588 8_2:+67505993 None:intergenic
AGCACTTGAAGGAACACAAT+GGG 0.519774 8_2:-67505758 Msa1264110:CDS
ACATTCATACCTGTCATACA+TGG 0.531583 8_2:+67505724 None:intergenic
TCCTGCTAGAGAACTTATCA+TGG 0.541437 8_2:-67505467 Msa1264110:CDS
AATAGCAGAAGGAATCTCTT+CGG 0.548948 8_2:+67505684 None:intergenic
ACCATGATAAGTTCTCTAGC+AGG 0.549644 8_2:+67505466 None:intergenic
TAGAGTTGCAGTAGCTTCCA+TGG 0.562853 8_2:+67506092 None:intergenic
GGCGTTGATGGATAAACGGT+GGG 0.563964 8_2:+67505960 None:intergenic
CTATAAGGCTTAATAGCAGA+AGG 0.564004 8_2:+67505673 None:intergenic
GTAGTAACCAAAGCAGAAGA+AGG 0.565336 8_2:+67505499 None:intergenic
ACGCTGAAACCATGTATGAC+AGG 0.579109 8_2:-67505733 Msa1264110:CDS
GCATAAATCTCGCCGCGTGT+CGG 0.580599 8_2:+67505547 None:intergenic
CGTTGTTGCAAAGAACACAT+TGG 0.598449 8_2:-67505788 Msa1264110:CDS
GAAAACTGTTACCTCCTCGC+CGG 0.614670 8_2:-67505883 Msa1264110:CDS
CGGCGTTGATGGATAAACGG+TGG 0.618873 8_2:+67505959 None:intergenic
CTTGAAACATTGCCGACACG+CGG 0.624834 8_2:-67505559 Msa1264110:CDS
AAGCTTGAAGAACAGGAACA+GGG 0.635295 8_2:-67505424 Msa1264110:CDS
TGTAGTTGATTCCGGCGAGG+AGG 0.639688 8_2:+67505872 None:intergenic
AAGCACTTGAAGGAACACAA+TGG 0.664659 8_2:-67505759 Msa1264110:CDS
GTATGACAGGTATGAATGTG+TGG 0.676357 8_2:-67505720 Msa1264110:CDS
CTCGCCGGAATCAACTACAA+AGG 0.676602 8_2:-67505868 Msa1264110:CDS
CTTTGTAGTTGATTCCGGCG+AGG 0.687827 8_2:+67505869 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAGTTCTTGAAATTGTTTAA+CGG + chr8_2:67505661-67505680 None:intergenic 20.0%
!! TATTTGAAAAGATTGGGTTT+TGG + chr8_2:67505454-67505473 None:intergenic 25.0%
! GGTTAGTATTTGAAAAGATT+GGG + chr8_2:67505460-67505479 None:intergenic 25.0%
!! TCTTTCTGAAAATCTCTATA+AGG + chr8_2:67505843-67505862 None:intergenic 25.0%
!!! GTTTTTGAAGGCAAATTTTA+TGG - chr8_2:67505897-67505916 Msa1264110:CDS 25.0%
!!! GAGATTTATGCTAATTTGTT+GGG - chr8_2:67505963-67505982 Msa1264110:CDS 25.0%
! GGGTTAGTATTTGAAAAGAT+TGG + chr8_2:67505461-67505480 None:intergenic 30.0%
!! GTTTTCAAGCTGTTCTTTTA+CGG + chr8_2:67505601-67505620 None:intergenic 30.0%
! TTGGTTTATAAAGCACTTGA+AGG - chr8_2:67505729-67505748 Msa1264110:CDS 30.0%
! CTTGAAGAGAATGATTTTAC+TGG - chr8_2:67505870-67505889 Msa1264110:CDS 30.0%
! CGAGATTTATGCTAATTTGT+TGG - chr8_2:67505962-67505981 Msa1264110:CDS 30.0%
AGAACTTATCATGGTTCTTA+AGG - chr8_2:67506040-67506059 Msa1264110:CDS 30.0%
TATTAAGAAGCTTGAAGAAC+AGG - chr8_2:67506067-67506086 Msa1264110:CDS 30.0%
!! TTGAAAAGATTGGGTTTTGG+TGG + chr8_2:67505451-67505470 None:intergenic 35.0%
TTTCTTTGTGCGTGAAATTG+CGG + chr8_2:67505562-67505581 None:intergenic 35.0%
! CTGTTCTTTTACGGTTTCAA+CGG + chr8_2:67505592-67505611 None:intergenic 35.0%
ACATTCATACCTGTCATACA+TGG + chr8_2:67505777-67505796 None:intergenic 35.0%
AATAGCAGAAGGAATCTCTT+CGG + chr8_2:67505817-67505836 None:intergenic 35.0%
CTATAAGGCTTAATAGCAGA+AGG + chr8_2:67505828-67505847 None:intergenic 35.0%
!!! TTTACTGGTGCTGTTTTTGA+AGG - chr8_2:67505885-67505904 Msa1264110:CDS 35.0%
TCAAGTTTCTTAAACTCGTC+AGG + chr8_2:67505924-67505943 None:intergenic 35.0%
!! AAAGATTGGGTTTTGGTGGA+TGG + chr8_2:67505447-67505466 None:intergenic 40.0%
!! TTGGTTTGTATGATGTGGGT+GGG + chr8_2:67505503-67505522 None:intergenic 40.0%
!! GGTCTTGGTTTGTATGATGT+GGG + chr8_2:67505507-67505526 None:intergenic 40.0%
!!! AAACGGTGGGTTTTGGAAAT+GGG + chr8_2:67505528-67505547 None:intergenic 40.0%
!!! TAAACGGTGGGTTTTGGAAA+TGG + chr8_2:67505529-67505548 None:intergenic 40.0%
! GAAGCCTTTGTAGTTGATTC+CGG + chr8_2:67505637-67505656 None:intergenic 40.0%
! ACAACGAGTTTCGTTGTTTC+AGG + chr8_2:67505696-67505715 None:intergenic 40.0%
CGTTGTTGCAAAGAACACAT+TGG - chr8_2:67505710-67505729 Msa1264110:CDS 40.0%
AAGCACTTGAAGGAACACAA+TGG - chr8_2:67505739-67505758 Msa1264110:CDS 40.0%
AGCACTTGAAGGAACACAAT+GGG - chr8_2:67505740-67505759 Msa1264110:CDS 40.0%
GTATGACAGGTATGAATGTG+TGG - chr8_2:67505778-67505797 Msa1264110:CDS 40.0%
GAAAAGTCCTTCTTCTGCTT+TGG - chr8_2:67505992-67506011 Msa1264110:CDS 40.0%
GTAGTAACCAAAGCAGAAGA+AGG + chr8_2:67506002-67506021 None:intergenic 40.0%
TCCTGCTAGAGAACTTATCA+TGG - chr8_2:67506031-67506050 Msa1264110:CDS 40.0%
ACCATGATAAGTTCTCTAGC+AGG + chr8_2:67506035-67506054 None:intergenic 40.0%
AAGCTTGAAGAACAGGAACA+GGG - chr8_2:67506074-67506093 Msa1264110:CDS 40.0%
!! GTTGAATGGGTTAATGGGTC+GGG + chr8_2:67505481-67505500 None:intergenic 45.0%
!! GGTTGAATGGGTTAATGGGT+CGG + chr8_2:67505482-67505501 None:intergenic 45.0%
!! GGTGGGTTGAATGGGTTAAT+GGG + chr8_2:67505486-67505505 None:intergenic 45.0%
!! ATGATGTGGGTGGGTTGAAT+GGG + chr8_2:67505494-67505513 None:intergenic 45.0%
!! TATGATGTGGGTGGGTTGAA+TGG + chr8_2:67505495-67505514 None:intergenic 45.0%
!! CTTGGTTTGTATGATGTGGG+TGG + chr8_2:67505504-67505523 None:intergenic 45.0%
!! GGGTCTTGGTTTGTATGATG+TGG + chr8_2:67505508-67505527 None:intergenic 45.0%
!!! TGGGTTTTGGAAATGGGTCT+TGG + chr8_2:67505522-67505541 None:intergenic 45.0%
!! GATGGATAAACGGTGGGTTT+TGG + chr8_2:67505535-67505554 None:intergenic 45.0%
!! TTGCGGCGTTGATGGATAAA+CGG + chr8_2:67505545-67505564 None:intergenic 45.0%
ACGCTGAAACCATGTATGAC+AGG - chr8_2:67505765-67505784 Msa1264110:CDS 45.0%
TTCTCTAGCAGGAGCTTGAA+TGG + chr8_2:67506024-67506043 None:intergenic 45.0%
GAAGCTTGAAGAACAGGAAC+AGG - chr8_2:67506073-67506092 Msa1264110:CDS 45.0%
!! GGGTGGGTTGAATGGGTTAA+TGG + chr8_2:67505487-67505506 None:intergenic 50.0%
!! GGCGTTGATGGATAAACGGT+GGG + chr8_2:67505541-67505560 None:intergenic 50.0%
GAAAACTGTTACCTCCTCGC+CGG - chr8_2:67505615-67505634 Msa1264110:CDS 50.0%
! CTTTGTAGTTGATTCCGGCG+AGG + chr8_2:67505632-67505651 None:intergenic 50.0%
CTCGCCGGAATCAACTACAA+AGG - chr8_2:67505630-67505649 Msa1264110:CDS 50.0%
CTTGAAACATTGCCGACACG+CGG - chr8_2:67505939-67505958 Msa1264110:CDS 50.0%
!! CGGCGTTGATGGATAAACGG+TGG + chr8_2:67505542-67505561 None:intergenic 55.0%
! GCGTGAAATTGCGGCGTTGA+TGG + chr8_2:67505553-67505572 None:intergenic 55.0%
! TGTAGTTGATTCCGGCGAGG+AGG + chr8_2:67505629-67505648 None:intergenic 55.0%
GCATAAATCTCGCCGCGTGT+CGG + chr8_2:67505954-67505973 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
chr8_2 gene 67505408 67506112 67505408 ID=Msa1264110;Name=Msa1264110
chr8_2 mRNA 67505408 67506112 67505408 ID=Msa1264110-mRNA-1;Parent=Msa1264110;Name=Msa1264110-mRNA-1;_AED=0.11;_eAED=0.11;_QI=0|-1|0|1|-1|1|1|0|234
chr8_2 exon 67505408 67506112 67505408 ID=Msa1264110-mRNA-1:exon:22266;Parent=Msa1264110-mRNA-1
chr8_2 CDS 67505408 67506112 67505408 ID=Msa1264110-mRNA-1:cds;Parent=Msa1264110-mRNA-1
Gene Sequence

>Msa1264110

ATGGAAGCTACTGCAACTCTACTCAGCTTCTCTCTTCCATCCACCAAAACCCAATCTTTTCAAATACTAACCCGACCCATTAACCCATTCAACCCACCCACATCATACAAACCAAGACCCATTTCCAAAACCCACCGTTTATCCATCAACGCCGCAATTTCACGCACAAAGAAAGAAGAAACCGTTGAAACCGTAAAAGAACAGCTTGAAAACTGTTACCTCCTCGCCGGAATCAACTACAAAGGCTTCACCGTTAAACAATTTCAAGAACTTAGAAAAACTCTTCCTGAAACAACGAAACTCGTTGTTGCAAAGAACACATTGGTTTATAAAGCACTTGAAGGAACACAATGGGAGACGCTGAAACCATGTATGACAGGTATGAATGTGTGGTTGTTTGTTCATACCGAAGAGATTCCTTCTGCTATTAAGCCTTATAGAGATTTTCAGAAAGAGAAGAAGCTTGAAGAGAATGATTTTACTGGTGCTGTTTTTGAAGGCAAATTTTATGGTCCTGACGAGTTTAAGAAACTTGAAACATTGCCGACACGCGGCGAGATTTATGCTAATTTGTTGGGTTCTTTGAAAAGTCCTTCTTCTGCTTTGGTTACTACCATTCAAGCTCCTGCTAGAGAACTTATCATGGTTCTTAAGGCACATATTAAGAAGCTTGAAGAACAGGAACAGGGTAGTGCTGTTCTATAG

Protein sequence

>Msa1264110

MEATATLLSFSLPSTKTQSFQILTRPINPFNPPTSYKPRPISKTHRLSINAAISRTKKEETVETVKEQLENCYLLAGINYKGFTVKQFQELRKTLPETTKLVVAKNTLVYKALEGTQWETLKPCMTGMNVWLFVHTEEIPSAIKPYRDFQKEKKLEENDFTGAVFEGKFYGPDEFKKLETLPTRGEIYANLLGSLKSPSSALVTTIQAPARELIMVLKAHIKKLEEQEQGSAVL*