AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene36731

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene36731.t1 MTR_2g035730 70.732 123 7 2 27 149 1 94 6.24e-49 154
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene36731.t1 AT2G01930 38.953 172 81 9 1 162 1 158 2.88e-18 80.1
MS.gene36731.t1 AT2G01930 38.953 172 81 9 1 162 1 158 2.88e-18 80.1
MS.gene36731.t1 AT1G14685 42.604 169 67 11 1 158 1 150 3.31e-13 66.2
MS.gene36731.t1 AT1G14685 42.604 169 67 11 1 158 1 150 3.31e-13 66.2
MS.gene36731.t1 AT1G14685 42.604 169 67 11 1 158 1 150 3.31e-13 66.2
MS.gene36731.t1 AT1G14685 42.604 169 67 11 1 158 1 150 3.31e-13 66.2

Find 53 sgRNAs with CRISPR-Local

Find 57 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTCGGCTTCCTGGGCTTCT+TGG 0.176884 8.2:+78444342 None:intergenic
GCTATCATCCTTCGGCTTCC+TGG 0.179821 8.2:+78444333 None:intergenic
TCTGGAAGAACATCATAATT+TGG 0.181172 8.2:+78444514 None:intergenic
TTCACTGTGTATAATGATTC+TGG 0.279049 8.2:-78444305 MS.gene36731:CDS
TTCCTGGGCTTCTTGGCTTT+TGG 0.290426 8.2:+78444349 None:intergenic
GAGAGTGCTTGTGATGCTTC+TGG 0.341012 8.2:+78444496 None:intergenic
GTCGAAGAAAAGGAAGTCTA+AGG 0.355045 8.2:-78444386 MS.gene36731:CDS
TTAACTATGTGAGGGATAAC+TGG 0.365336 8.2:-78444579 MS.gene36731:CDS
ACCGAGATTCCCGCCCTTGA+AGG 0.367229 8.2:+78444741 None:intergenic
ATCACAAGCACTCTCCTTGC+CGG 0.385439 8.2:-78444488 MS.gene36731:CDS
GCATCAGGCTGCGGTATAAC+CGG 0.404926 8.2:+78444469 None:intergenic
CCCTTCAAGGGCGGGAATCT+CGG 0.408886 8.2:-78444742 MS.gene36731:CDS
TTCTCATTTCTCGATGCATC+AGG 0.415343 8.2:+78444454 None:intergenic
TTTGCACTTTCTATCATAGC+TGG 0.416866 8.2:+78444658 None:intergenic
GGGTTACTATGAACCCTTCA+AGG 0.417533 8.2:-78444755 MS.gene36731:CDS
CTATCATCCTTCGGCTTCCT+GGG 0.424580 8.2:+78444334 None:intergenic
GCTATGATAGAAAGTGCAAA+TGG 0.429798 8.2:-78444655 MS.gene36731:CDS
TATTGATAAACCTATGTCTC+GGG 0.452192 8.2:+78444551 None:intergenic
GGGTTCATAGTAACCCCAAT+TGG 0.466238 8.2:+78444762 None:intergenic
ATGTGCTGAATATGCCCAAT+TGG 0.468228 8.2:-78444777 MS.gene36731:CDS
CTCCAAAAGCCAAGAAGCCC+AGG 0.474778 8.2:-78444351 MS.gene36731:CDS
ATCTCGTGGCTGAAAGGGCA+AGG 0.493413 8.2:+78444630 None:intergenic
AGCACAATCTCGTGGCTGAA+AGG 0.494131 8.2:+78444624 None:intergenic
TTATCCCTCACATAGTTAAA+CGG 0.497017 8.2:+78444583 None:intergenic
CCGAGATTCCCGCCCTTGAA+GGG 0.500034 8.2:+78444742 None:intergenic
GTTTCACGATCATTCATGGC+AGG 0.511266 8.2:+78444706 None:intergenic
GGTTCATAGTAACCCCAATT+GGG 0.512276 8.2:+78444763 None:intergenic
AAGGTGGCAAGTCGAAGAAA+AGG 0.512875 8.2:-78444396 MS.gene36731:CDS
GAAACACTGCTATCATCCTT+CGG 0.515544 8.2:+78444325 None:intergenic
TGTGCTGAATATGCCCAATT+GGG 0.516384 8.2:-78444776 MS.gene36731:CDS
GCACAATCTCGTGGCTGAAA+GGG 0.516986 8.2:+78444625 None:intergenic
ATATTGATAAACCTATGTCT+CGG 0.524517 8.2:+78444550 None:intergenic
TTTCTCGATGCATCAGGCTG+CGG 0.540748 8.2:+78444460 None:intergenic
ACTGGATGACCCCGAGACAT+AGG 0.551501 8.2:-78444561 MS.gene36731:CDS
GAATTAAGTGTCAAGAAGGA+AGG 0.552552 8.2:-78444415 MS.gene36731:CDS
CAAGAAGCCCAGGAAGCCGA+AGG 0.555978 8.2:-78444341 MS.gene36731:CDS
TGAAGAATTAAGTGTCAAGA+AGG 0.556942 8.2:-78444419 MS.gene36731:CDS
GGTTACTATGAACCCTTCAA+GGG 0.573399 8.2:-78444754 MS.gene36731:CDS
ACTATGAACCCTTCAAGGGC+GGG 0.575356 8.2:-78444750 MS.gene36731:CDS
ATCATAGCTGGATCACGACC+AGG 0.583164 8.2:+78444670 None:intergenic
CTACTCCGTTTAACTATGTG+AGG 0.583386 8.2:-78444588 MS.gene36731:CDS
TACTATGAACCCTTCAAGGG+CGG 0.584210 8.2:-78444751 MS.gene36731:CDS
CTATGATAGAAAGTGCAAAT+GGG 0.585696 8.2:-78444654 MS.gene36731:CDS
TCTCGTGGCTGAAAGGGCAA+GGG 0.616671 8.2:+78444631 None:intergenic
TCGAAGAAAAGGAAGTCTAA+GGG 0.624050 8.2:-78444385 MS.gene36731:CDS
TTAAGTGTCAAGAAGGAAGG+TGG 0.636760 8.2:-78444412 MS.gene36731:CDS
AGGCTGCGGTATAACCGGCA+AGG 0.642668 8.2:+78444474 None:intergenic
TACTCCGTTTAACTATGTGA+GGG 0.653092 8.2:-78444587 MS.gene36731:CDS
GATCATTCATGGCAGGCATG+AGG 0.655695 8.2:+78444713 None:intergenic
ATTGATAAACCTATGTCTCG+GGG 0.666123 8.2:+78444552 None:intergenic
TCTGAAACAGCACAATCTCG+TGG 0.669880 8.2:+78444616 None:intergenic
TGCATCGAGAAATGAGAATG+TGG 0.678196 8.2:-78444449 MS.gene36731:CDS
GTGCTGAATATGCCCAATTG+GGG 0.693408 8.2:-78444775 MS.gene36731:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATATTGATAAACCTATGTCT+CGG + chr8.2:78444519-78444538 None:intergenic 25.0%
TATTGATAAACCTATGTCTC+GGG + chr8.2:78444518-78444537 None:intergenic 30.0%
TCTGGAAGAACATCATAATT+TGG + chr8.2:78444555-78444574 None:intergenic 30.0%
TGAAGAATTAAGTGTCAAGA+AGG - chr8.2:78444647-78444666 MS.gene36731:CDS 30.0%
TTATCCCTCACATAGTTAAA+CGG + chr8.2:78444486-78444505 None:intergenic 30.0%
TTCACTGTGTATAATGATTC+TGG - chr8.2:78444761-78444780 MS.gene36731:CDS 30.0%
! CTATGATAGAAAGTGCAAAT+GGG - chr8.2:78444412-78444431 MS.gene36731:CDS 30.0%
!! TTTTGTTTCACGATCATTCA+TGG + chr8.2:78444367-78444386 None:intergenic 30.0%
!!! GAAACAAAACCATTTTTTCC+TGG - chr8.2:78444378-78444397 MS.gene36731:CDS 30.0%
ATTGATAAACCTATGTCTCG+GGG + chr8.2:78444517-78444536 None:intergenic 35.0%
GAATTAAGTGTCAAGAAGGA+AGG - chr8.2:78444651-78444670 MS.gene36731:CDS 35.0%
TACTCCGTTTAACTATGTGA+GGG - chr8.2:78444479-78444498 MS.gene36731:CDS 35.0%
TCGAAGAAAAGGAAGTCTAA+GGG - chr8.2:78444681-78444700 MS.gene36731:CDS 35.0%
TTAACTATGTGAGGGATAAC+TGG - chr8.2:78444487-78444506 MS.gene36731:CDS 35.0%
TTTGCACTTTCTATCATAGC+TGG + chr8.2:78444411-78444430 None:intergenic 35.0%
! GCTATGATAGAAAGTGCAAA+TGG - chr8.2:78444411-78444430 MS.gene36731:CDS 35.0%
ATGTGCTGAATATGCCCAAT+TGG - chr8.2:78444289-78444308 MS.gene36731:CDS 40.0%
CTACTCCGTTTAACTATGTG+AGG - chr8.2:78444478-78444497 MS.gene36731:CDS 40.0%
GAAACACTGCTATCATCCTT+CGG + chr8.2:78444744-78444763 None:intergenic 40.0%
GGTTACTATGAACCCTTCAA+GGG - chr8.2:78444312-78444331 MS.gene36731:CDS 40.0%
GGTTCATAGTAACCCCAATT+GGG + chr8.2:78444306-78444325 None:intergenic 40.0%
GTCGAAGAAAAGGAAGTCTA+AGG - chr8.2:78444680-78444699 MS.gene36731:CDS 40.0%
TGCATCGAGAAATGAGAATG+TGG - chr8.2:78444617-78444636 MS.gene36731:CDS 40.0%
TGTGCTGAATATGCCCAATT+GGG - chr8.2:78444290-78444309 MS.gene36731:CDS 40.0%
TTAAGTGTCAAGAAGGAAGG+TGG - chr8.2:78444654-78444673 MS.gene36731:CDS 40.0%
TTCTCATTTCTCGATGCATC+AGG + chr8.2:78444615-78444634 None:intergenic 40.0%
AAGGTGGCAAGTCGAAGAAA+AGG - chr8.2:78444670-78444689 MS.gene36731:CDS 45.0%
GGATCACGACCAGGAAAAAA+TGG + chr8.2:78444390-78444409 None:intergenic 45.0%
GGGTTACTATGAACCCTTCA+AGG - chr8.2:78444311-78444330 MS.gene36731:CDS 45.0%
GGGTTCATAGTAACCCCAAT+TGG + chr8.2:78444307-78444326 None:intergenic 45.0%
GTGCTGAATATGCCCAATTG+GGG - chr8.2:78444291-78444310 MS.gene36731:CDS 45.0%
GTTTCACGATCATTCATGGC+AGG + chr8.2:78444363-78444382 None:intergenic 45.0%
TACTATGAACCCTTCAAGGG+CGG - chr8.2:78444315-78444334 MS.gene36731:CDS 45.0%
! TCTGAAACAGCACAATCTCG+TGG + chr8.2:78444453-78444472 None:intergenic 45.0%
ACTATGAACCCTTCAAGGGC+GGG - chr8.2:78444316-78444335 MS.gene36731:CDS 50.0%
AGCACAATCTCGTGGCTGAA+AGG + chr8.2:78444445-78444464 None:intergenic 50.0%
ATCACAAGCACTCTCCTTGC+CGG - chr8.2:78444578-78444597 MS.gene36731:CDS 50.0%
ATCATAGCTGGATCACGACC+AGG + chr8.2:78444399-78444418 None:intergenic 50.0%
CTATCATCCTTCGGCTTCCT+GGG + chr8.2:78444735-78444754 None:intergenic 50.0%
GATCATTCATGGCAGGCATG+AGG + chr8.2:78444356-78444375 None:intergenic 50.0%
GCACAATCTCGTGGCTGAAA+GGG + chr8.2:78444444-78444463 None:intergenic 50.0%
TTTCTCGATGCATCAGGCTG+CGG + chr8.2:78444609-78444628 None:intergenic 50.0%
!! GAGAGTGCTTGTGATGCTTC+TGG + chr8.2:78444573-78444592 None:intergenic 50.0%
!! TTCCTGGGCTTCTTGGCTTT+TGG + chr8.2:78444720-78444739 None:intergenic 50.0%
ACTGGATGACCCCGAGACAT+AGG - chr8.2:78444505-78444524 MS.gene36731:CDS 55.0%
ATCTCGTGGCTGAAAGGGCA+AGG + chr8.2:78444439-78444458 None:intergenic 55.0%
CTCCAAAAGCCAAGAAGCCC+AGG - chr8.2:78444715-78444734 MS.gene36731:CDS 55.0%
GCATCAGGCTGCGGTATAAC+CGG + chr8.2:78444600-78444619 None:intergenic 55.0%
GCTATCATCCTTCGGCTTCC+TGG + chr8.2:78444736-78444755 None:intergenic 55.0%
TCTCGTGGCTGAAAGGGCAA+GGG + chr8.2:78444438-78444457 None:intergenic 55.0%
!! GGGCTTCTTGGCTTTTGGAG+TGG + chr8.2:78444715-78444734 None:intergenic 55.0%
ACCGAGATTCCCGCCCTTGA+AGG + chr8.2:78444328-78444347 None:intergenic 60.0%
AGGCTGCGGTATAACCGGCA+AGG + chr8.2:78444595-78444614 None:intergenic 60.0%
CAAGAAGCCCAGGAAGCCGA+AGG - chr8.2:78444725-78444744 MS.gene36731:CDS 60.0%
CCCTTCAAGGGCGGGAATCT+CGG - chr8.2:78444324-78444343 MS.gene36731:CDS 60.0%
CCGAGATTCCCGCCCTTGAA+GGG + chr8.2:78444327-78444346 None:intergenic 60.0%
CTTCGGCTTCCTGGGCTTCT+TGG + chr8.2:78444727-78444746 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 78444279 78444809 78444279 ID=MS.gene36731
chr8.2 mRNA 78444279 78444809 78444279 ID=MS.gene36731.t1;Parent=MS.gene36731
chr8.2 exon 78444279 78444809 78444279 ID=MS.gene36731.t1.exon1;Parent=MS.gene36731.t1
chr8.2 CDS 78444279 78444809 78444279 ID=cds.MS.gene36731.t1;Parent=MS.gene36731.t1
Gene Sequence

>MS.gene36731

ATGGATGATGATGTGCTGAATATGCCCAATTGGGGTTACTATGAACCCTTCAAGGGCGGGAATCTCGGTCAGAACCTCATGCCTGCCATGAATGATCGTGAAACAAAACCATTTTTTCCTGGTCGTGATCCAGCTATGATAGAAAGTGCAAATGGGCCCTTGCCCTTTCAGCCACGAGATTGTGCTGTTTCAGAGTCTGCTACTCCGTTTAACTATGTGAGGGATAACTGGATGACCCCGAGACATAGGTTTATCAATATGCAGCTGACAAATCCAAATTATGATGTTCTTCCAGAAGCATCACAAGCACTCTCCTTGCCGGTTATACCGCAGCCTGATGCATCGAGAAATGAGAATGTGGAGAATGCTGAAGAATTAAGTGTCAAGAAGGAAGGTGGCAAGTCGAAGAAAAGGAAGTCTAAGGGTGCTGTTACCACTCCAAAAGCCAAGAAGCCCAGGAAGCCGAAGGATGATAGCAGTGTTTCACTGTGTATAATGATTCTGGAAGAAATCAGCTTTCTTTTCATTTAA
Protein sequence

>MS.gene36731.t1

MDDDVLNMPNWGYYEPFKGGNLGQNLMPAMNDRETKPFFPGRDPAMIESANGPLPFQPRDCAVSESATPFNYVRDNWMTPRHRFINMQLTNPNYDVLPEASQALSLPVIPQPDASRNENVENAEELSVKKEGGKSKKRKSKGAVTTPKAKKPRKPKDDSSVSLCIMILEEISFLFI