AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene37465

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene37465.t1 MTR_3g103360 92.908 141 10 0 1 141 1 141 7.13e-90 257
MS.gene37465.t1 MTR_1g017570 64.000 125 45 0 11 135 15 139 2.32e-44 142
MS.gene37465.t1 MTR_4g097440 44.762 105 54 2 31 135 54 154 1.54e-19 80.1
MS.gene37465.t1 MTR_5g015090 42.063 126 63 2 16 131 11 136 2.03e-19 79.3
MS.gene37465.t1 MTR_1g022495 45.161 62 34 0 53 114 27 88 6.78e-11 57.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene37465.t1 AT3G49760 41.667 132 70 2 11 135 20 151 3.92e-23 89.0
MS.gene37465.t1 AT2G22850 45.333 75 40 1 47 120 119 193 5.88e-15 69.3
MS.gene37465.t1 AT2G22850 45.333 75 40 1 47 120 119 193 5.88e-15 69.3
MS.gene37465.t1 AT4G37730 42.857 77 44 0 55 131 196 272 3.41e-13 65.5
MS.gene37465.t1 AT1G75390 44.156 77 43 0 41 117 26 102 5.19e-13 62.0
MS.gene37465.t1 AT1G75390 37.500 104 62 1 41 141 26 129 9.50e-13 62.4

Find 38 sgRNAs with CRISPR-Local

Find 40 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTAAGCTTTCTTTCTTTCA+TGG 0.211843 3.4:-90988444 None:intergenic
ATCTGAATCCGTTGCTCTTT+TGG 0.212842 3.4:+90988643 MS.gene37465:CDS
ATTGGTTAATGAGGGAAAAT+AGG 0.296028 3.4:-90988364 None:intergenic
CGAAGAAGCGGTTCAATTAC+CGG 0.309274 3.4:+90988304 MS.gene37465:CDS
GACTGGCTGGGTCTTCTGAT+TGG 0.348871 3.4:-90988382 None:intergenic
GATGCATGGTGAAGGCTAAT+TGG 0.355774 3.4:-90988583 None:intergenic
CGGTAATTGAACCGCTTCTT+CGG 0.370695 3.4:-90988303 None:intergenic
AGACGTGGAGTTGCTTAAAA+TGG 0.377437 3.4:-90988687 None:intergenic
CAACGGATTCAGATATTAAC+TGG 0.393377 3.4:-90988634 None:intergenic
CAATTCTCAATCGGTTCAAC+CGG 0.393608 3.4:-90988541 None:intergenic
GGGACCGTTGAGCTGATTCC+CGG 0.426255 3.4:-90988481 None:intergenic
GAAAGCATGGTTTCGAGAAC+CGG 0.430445 3.4:-90988323 None:intergenic
GAACCGGAGCTAGGACTGGC+TGG 0.433057 3.4:-90988395 None:intergenic
ATTTAGAGAACGTAGCGAAC+CGG 0.447121 3.4:+90988522 MS.gene37465:CDS
ACGGTTTGAACTAATTGAAC+CGG 0.452179 3.4:-90988411 None:intergenic
ATATTAACTGGTCATTCTCT+AGG 0.456162 3.4:-90988622 None:intergenic
TTAGGCGCATGCAGTCGAAC+CGG 0.458598 3.4:+90988462 MS.gene37465:CDS
TATTTCACTTTCTGAAAGCA+TGG 0.509902 3.4:-90988336 None:intergenic
GAACTAATTGAACCGGAGCT+AGG 0.516402 3.4:-90988404 None:intergenic
GGTCTTCTGATTGGTTAATG+AGG 0.528114 3.4:-90988373 None:intergenic
TAGGCGCATGCAGTCGAACC+GGG 0.532412 3.4:+90988463 MS.gene37465:CDS
AATTGAACCGGAGCTAGGAC+TGG 0.534821 3.4:-90988399 None:intergenic
GACCCAGCCAGTCCTAGCTC+CGG 0.546148 3.4:+90988392 MS.gene37465:CDS
GTCTTCTGATTGGTTAATGA+GGG 0.549429 3.4:-90988372 None:intergenic
ATTGAACCGCTTCTTCGGTG+TGG 0.564234 3.4:-90988298 None:intergenic
TATTAACTGGTCATTCTCTA+GGG 0.567843 3.4:-90988621 None:intergenic
CCATGAAAGAAAGAAAGCTT+AGG 0.580437 3.4:+90988444 MS.gene37465:CDS
AACCGGAGCTAGGACTGGCT+GGG 0.592415 3.4:-90988394 None:intergenic
GGCACAAAGATTTGAAAGTG+TGG 0.594066 3.4:-90988666 None:intergenic
TCTCTAGGGAAAGTAGAAGA+TGG 0.601813 3.4:-90988607 None:intergenic
GCTAATCCACACCGAAGAAG+CGG 0.603666 3.4:+90988292 MS.gene37465:CDS
AAGTGTGGCCAAAAGAGCAA+CGG 0.650541 3.4:-90988651 None:intergenic
AAGATGGTGATGCATGGTGA+AGG 0.651464 3.4:-90988591 None:intergenic
CATTGTGATTTATGAAGACG+TGG 0.659611 3.4:-90988702 None:intergenic
TTCAATTAGTTCAAACCGTG+CGG 0.671624 3.4:+90988415 MS.gene37465:CDS
AAGTAGAAGATGGTGATGCA+TGG 0.688862 3.4:-90988597 None:intergenic
CGAACCGGGAATCAGCTCAA+CGG 0.693470 3.4:+90988477 MS.gene37465:CDS
CTTTCATGGAGTAAACCGCA+CGG 0.700922 3.4:-90988430 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATGCTTCTTCTTTTTGTAA+CGG - chr3.4:90988505-90988524 None:intergenic 25.0%
!! CTTGATTTTCAATTCTCAAT+CGG - chr3.4:90988553-90988572 None:intergenic 25.0%
ATATTAACTGGTCATTCTCT+AGG - chr3.4:90988625-90988644 None:intergenic 30.0%
ATTGGTTAATGAGGGAAAAT+AGG - chr3.4:90988367-90988386 None:intergenic 30.0%
TATTAACTGGTCATTCTCTA+GGG - chr3.4:90988624-90988643 None:intergenic 30.0%
! ATGCTTCTTCTTTTTGTAAC+GGG - chr3.4:90988504-90988523 None:intergenic 30.0%
! TATTTCACTTTCTGAAAGCA+TGG - chr3.4:90988339-90988358 None:intergenic 30.0%
ACGGTTTGAACTAATTGAAC+CGG - chr3.4:90988414-90988433 None:intergenic 35.0%
CCATGAAAGAAAGAAAGCTT+AGG + chr3.4:90988444-90988463 MS.gene37465:CDS 35.0%
CCTAAGCTTTCTTTCTTTCA+TGG - chr3.4:90988447-90988466 None:intergenic 35.0%
TTCAATTAGTTCAAACCGTG+CGG + chr3.4:90988415-90988434 MS.gene37465:CDS 35.0%
! CAACGGATTCAGATATTAAC+TGG - chr3.4:90988637-90988656 None:intergenic 35.0%
! GTCTTCTGATTGGTTAATGA+GGG - chr3.4:90988375-90988394 None:intergenic 35.0%
AGACGTGGAGTTGCTTAAAA+TGG - chr3.4:90988690-90988709 None:intergenic 40.0%
ATTTAGAGAACGTAGCGAAC+CGG + chr3.4:90988522-90988541 MS.gene37465:CDS 40.0%
GGCACAAAGATTTGAAAGTG+TGG - chr3.4:90988669-90988688 None:intergenic 40.0%
! AAGTAGAAGATGGTGATGCA+TGG - chr3.4:90988600-90988619 None:intergenic 40.0%
! ATCTGAATCCGTTGCTCTTT+TGG + chr3.4:90988643-90988662 MS.gene37465:CDS 40.0%
! CAATTCTCAATCGGTTCAAC+CGG - chr3.4:90988544-90988563 None:intergenic 40.0%
! GGTCTTCTGATTGGTTAATG+AGG - chr3.4:90988376-90988395 None:intergenic 40.0%
! TCTCTAGGGAAAGTAGAAGA+TGG - chr3.4:90988610-90988629 None:intergenic 40.0%
AAGTGTGGCCAAAAGAGCAA+CGG - chr3.4:90988654-90988673 None:intergenic 45.0%
CGAAGAAGCGGTTCAATTAC+CGG + chr3.4:90988304-90988323 MS.gene37465:CDS 45.0%
CGGTAATTGAACCGCTTCTT+CGG - chr3.4:90988306-90988325 None:intergenic 45.0%
CTTTCATGGAGTAAACCGCA+CGG - chr3.4:90988433-90988452 None:intergenic 45.0%
GAACTAATTGAACCGGAGCT+AGG - chr3.4:90988407-90988426 None:intergenic 45.0%
GATGCATGGTGAAGGCTAAT+TGG - chr3.4:90988586-90988605 None:intergenic 45.0%
! AAGATGGTGATGCATGGTGA+AGG - chr3.4:90988594-90988613 None:intergenic 45.0%
! GAAAGCATGGTTTCGAGAAC+CGG - chr3.4:90988326-90988345 None:intergenic 45.0%
AATTGAACCGGAGCTAGGAC+TGG - chr3.4:90988402-90988421 None:intergenic 50.0%
ATTGAACCGCTTCTTCGGTG+TGG - chr3.4:90988301-90988320 None:intergenic 50.0%
GCTAATCCACACCGAAGAAG+CGG + chr3.4:90988292-90988311 MS.gene37465:CDS 50.0%
CGAACCGGGAATCAGCTCAA+CGG + chr3.4:90988477-90988496 MS.gene37465:CDS 55.0%
TTAGGCGCATGCAGTCGAAC+CGG + chr3.4:90988462-90988481 MS.gene37465:CDS 55.0%
! GACTGGCTGGGTCTTCTGAT+TGG - chr3.4:90988385-90988404 None:intergenic 55.0%
TAGGCGCATGCAGTCGAACC+GGG + chr3.4:90988463-90988482 MS.gene37465:CDS 60.0%
! GGGACCGTTGAGCTGATTCC+CGG - chr3.4:90988484-90988503 None:intergenic 60.0%
!! AACCGGAGCTAGGACTGGCT+GGG - chr3.4:90988397-90988416 None:intergenic 60.0%
GACCCAGCCAGTCCTAGCTC+CGG + chr3.4:90988392-90988411 MS.gene37465:CDS 65.0%
! GAACCGGAGCTAGGACTGGC+TGG - chr3.4:90988398-90988417 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr3.4 gene 90988290 90988715 90988290 ID=MS.gene37465
chr3.4 mRNA 90988290 90988715 90988290 ID=MS.gene37465.t1;Parent=MS.gene37465
chr3.4 exon 90988290 90988715 90988290 ID=MS.gene37465.t1.exon1;Parent=MS.gene37465.t1
chr3.4 CDS 90988290 90988715 90988290 ID=cds.MS.gene37465.t1;Parent=MS.gene37465.t1
Gene Sequence

>MS.gene37465

ATGCTAATCCACACCGAAGAAGCGGTTCAATTACCGGTTCTCGAAACCATGCTTTCAGAAAGTGAAATACAATACCTATTTTCCCTCATTAACCAATCAGAAGACCCAGCCAGTCCTAGCTCCGGTTCAATTAGTTCAAACCGTGCGGTTTACTCCATGAAAGAAAGAAAGCTTAGGCGCATGCAGTCGAACCGGGAATCAGCTCAACGGTCCCGTTACAAAAAGAAGAAGCATTTAGAGAACGTAGCGAACCGGTTGAACCGATTGAGAATTGAAAATCAAGAACTAAAAAACCAATTAGCCTTCACCATGCATCACCATCTTCTACTTTCCCTAGAGAATGACCAGTTAATATCTGAATCCGTTGCTCTTTTGGCCACACTTTCAAATCTTTGTGCCATTTTAAGCAACTCCACGTCTTCATAA
Protein sequence

>MS.gene37465.t1

MLIHTEEAVQLPVLETMLSESEIQYLFSLINQSEDPASPSSGSISSNRAVYSMKERKLRRMQSNRESAQRSRYKKKKHLENVANRLNRLRIENQELKNQLAFTMHHHLLLSLENDQLISESVALLATLSNLCAILSNSTSS