AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0907880

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0907880 MtrunA17_Chr2g0279541 65.574 122 10 5 1 120 1 92 1.19e-21 82.0
Msa0907880 MtrunA17_Chr4g0049911 50.962 104 40 3 1 97 1 100 1.02e-14 65.5
Msa0907880 MtrunA17_Chr4g0049921 50.962 104 40 3 1 97 1 100 1.19e-14 65.1
Msa0907880 MtrunA17_Chr4g0049951 50.000 104 41 3 1 97 1 100 6.14e-14 63.5
Msa0907880 MtrunA17_Chr5g0426511 42.857 154 44 9 1 120 1 144 1.40e-12 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 39 sgRNAs with CRISPR-Local

Find 42 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTGGAAGTGTTGGTGTAGT+TGG 0.341757 6_2:+8747467 None:intergenic
TTTGGCAATGTTGGGATTGT+AGG 0.346130 6_2:+8747383 None:intergenic
ATAGATGGCTGAGTAGGTTT+TGG 0.351476 6_2:+8747365 None:intergenic
GGGATTGTAGTAGGAATGTT+TGG 0.366842 6_2:+8747287 None:intergenic
AAAGGTGGCAATGTTGGTTT+TGG 0.390048 6_2:+8747449 None:intergenic
GGGAATGTTGGCATAGTGAT+TGG 0.393983 6_2:+8747266 None:intergenic
TGAGGCAATGTTGGAATTGT+TGG 0.400561 6_2:+8747425 None:intergenic
TGTGGAATAGTTGGAATTGT+AGG 0.403230 6_2:+8747329 None:intergenic
TGAAGGTGGTGGAGAAAAGA+AGG 0.426869 6_2:+8747244 None:intergenic
GGGATAGTACTAGGAATAGA+TGG 0.460146 6_2:+8747350 None:intergenic
TGCTAAAATGAAGGAACTAT+AGG 0.465331 6_2:+8747562 None:intergenic
TGCTATTTCCTTCTCAAACA+TGG 0.466175 6_2:-8747531 Msa0907880:CDS
ACATTTCCTTGAGGCAATGT+TGG 0.483996 6_2:+8747416 None:intergenic
GGAATGTTGGCATAGTGATT+GGG 0.491312 6_2:+8747267 None:intergenic
ATAGTGATTGGGATTGTAGT+AGG 0.509782 6_2:+8747278 None:intergenic
GGAGAAAAGAAGGGGAATGT+TGG 0.509998 6_2:+8747254 None:intergenic
AATGAAAATTGCTAAAATGA+AGG 0.510394 6_2:+8747553 None:intergenic
AGAGTGAACTGTGGAATAGT+TGG 0.512404 6_2:+8747320 None:intergenic
GAAGAAGATTGCGAACTGCT+AGG 0.522997 6_2:+8747501 None:intergenic
GAAGGTGGTGGAGAAAAGAA+GGG 0.525536 6_2:+8747245 None:intergenic
GTGGAATAGTTGGAATTGTA+GGG 0.531662 6_2:+8747330 None:intergenic
AAGAAGATTGCGAACTGCTA+GGG 0.533816 6_2:+8747502 None:intergenic
GTTGGAATTGTTGGCAAAGG+TGG 0.537047 6_2:+8747434 None:intergenic
CTAGGAATAGATGGCTGAGT+AGG 0.540861 6_2:+8747359 None:intergenic
GTAGTAGGAATGTTTGGAAG+TGG 0.541956 6_2:+8747293 None:intergenic
GGAATTGTAGGGATAGTACT+AGG 0.546673 6_2:+8747341 None:intergenic
GTTGGGATTGTAGGCAAAGG+TGG 0.549782 6_2:+8747392 None:intergenic
GTTGGCAAAGGTGGCAATGT+TGG 0.551431 6_2:+8747443 None:intergenic
GTAGGAATGTTTGGAAGTGG+TGG 0.557881 6_2:+8747296 None:intergenic
GAAGGAACTATAGGAGGCCA+TGG 0.565486 6_2:+8747571 None:intergenic
TAAAATGAAGGAACTATAGG+AGG 0.579978 6_2:+8747565 None:intergenic
GGTAATGTCCATGTTTGAGA+AGG 0.594515 6_2:+8747523 None:intergenic
TTGACACGAACTTCAAGGAG+TGG 0.601056 6_2:+8747217 None:intergenic
ACAATTCCAACATTGCCTCA+AGG 0.633830 6_2:-8747422 Msa0907880:CDS
AAGGTGGTGGAGAAAAGAAG+GGG 0.639486 6_2:+8747246 None:intergenic
AATGTTGGAATTGTTGGCAA+AGG 0.641702 6_2:+8747431 None:intergenic
AGTGGTGGAAGAGTGAACTG+TGG 0.689745 6_2:+8747311 None:intergenic
AATGTTGGGATTGTAGGCAA+AGG 0.702377 6_2:+8747389 None:intergenic
AAAGGTGGAACATTTCCTTG+AGG 0.706888 6_2:+8747407 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATGAAAATTGCTAAAATGA+AGG + chr6_2:8747248-8747267 None:intergenic 20.0%
TAAAATGAAGGAACTATAGG+AGG + chr6_2:8747236-8747255 None:intergenic 30.0%
TGCTAAAATGAAGGAACTAT+AGG + chr6_2:8747239-8747258 None:intergenic 30.0%
!! TGCTATTTCCTTCTCAAACA+TGG - chr6_2:8747267-8747286 Msa0907880:CDS 35.0%
!!! AATGTTGGTTTTGGAAGTGT+TGG + chr6_2:8747343-8747362 None:intergenic 35.0%
AATGTTGGAATTGTTGGCAA+AGG + chr6_2:8747370-8747389 None:intergenic 35.0%
GTGGAATAGTTGGAATTGTA+GGG + chr6_2:8747471-8747490 None:intergenic 35.0%
TGTGGAATAGTTGGAATTGT+AGG + chr6_2:8747472-8747491 None:intergenic 35.0%
ATAGTGATTGGGATTGTAGT+AGG + chr6_2:8747523-8747542 None:intergenic 35.0%
GGTAATGTCCATGTTTGAGA+AGG + chr6_2:8747278-8747297 None:intergenic 40.0%
AAGAAGATTGCGAACTGCTA+GGG + chr6_2:8747299-8747318 None:intergenic 40.0%
!! TTTGGAAGTGTTGGTGTAGT+TGG + chr6_2:8747334-8747353 None:intergenic 40.0%
!!! AAAGGTGGCAATGTTGGTTT+TGG + chr6_2:8747352-8747371 None:intergenic 40.0%
TGAGGCAATGTTGGAATTGT+TGG + chr6_2:8747376-8747395 None:intergenic 40.0%
ACAATTCCAACATTGCCTCA+AGG - chr6_2:8747376-8747395 Msa0907880:CDS 40.0%
ACATTTCCTTGAGGCAATGT+TGG + chr6_2:8747385-8747404 None:intergenic 40.0%
AAAGGTGGAACATTTCCTTG+AGG + chr6_2:8747394-8747413 None:intergenic 40.0%
AATGTTGGGATTGTAGGCAA+AGG + chr6_2:8747412-8747431 None:intergenic 40.0%
TTTGGCAATGTTGGGATTGT+AGG + chr6_2:8747418-8747437 None:intergenic 40.0%
!! GAGTAGGTTTTGGCAATGTT+GGG + chr6_2:8747426-8747445 None:intergenic 40.0%
!! TGAGTAGGTTTTGGCAATGT+TGG + chr6_2:8747427-8747446 None:intergenic 40.0%
! ATAGATGGCTGAGTAGGTTT+TGG + chr6_2:8747436-8747455 None:intergenic 40.0%
GGGATAGTACTAGGAATAGA+TGG + chr6_2:8747451-8747470 None:intergenic 40.0%
GGAATTGTAGGGATAGTACT+AGG + chr6_2:8747460-8747479 None:intergenic 40.0%
AGAGTGAACTGTGGAATAGT+TGG + chr6_2:8747481-8747500 None:intergenic 40.0%
GTAGTAGGAATGTTTGGAAG+TGG + chr6_2:8747508-8747527 None:intergenic 40.0%
GGGATTGTAGTAGGAATGTT+TGG + chr6_2:8747514-8747533 None:intergenic 40.0%
GGAATGTTGGCATAGTGATT+GGG + chr6_2:8747534-8747553 None:intergenic 40.0%
GAAGAAGATTGCGAACTGCT+AGG + chr6_2:8747300-8747319 None:intergenic 45.0%
GTTGGAATTGTTGGCAAAGG+TGG + chr6_2:8747367-8747386 None:intergenic 45.0%
CTAGGAATAGATGGCTGAGT+AGG + chr6_2:8747442-8747461 None:intergenic 45.0%
GTAGGAATGTTTGGAAGTGG+TGG + chr6_2:8747505-8747524 None:intergenic 45.0%
GGGAATGTTGGCATAGTGAT+TGG + chr6_2:8747535-8747554 None:intergenic 45.0%
GGAGAAAAGAAGGGGAATGT+TGG + chr6_2:8747547-8747566 None:intergenic 45.0%
!! AAGGTGGTGGAGAAAAGAAG+GGG + chr6_2:8747555-8747574 None:intergenic 45.0%
!! GAAGGTGGTGGAGAAAAGAA+GGG + chr6_2:8747556-8747575 None:intergenic 45.0%
!! TGAAGGTGGTGGAGAAAAGA+AGG + chr6_2:8747557-8747576 None:intergenic 45.0%
!! CAAGGAGTGGTTTTTGAAGG+TGG + chr6_2:8747571-8747590 None:intergenic 45.0%
GTTGGCAAAGGTGGCAATGT+TGG + chr6_2:8747358-8747377 None:intergenic 50.0%
GTTGGGATTGTAGGCAAAGG+TGG + chr6_2:8747409-8747428 None:intergenic 50.0%
! AGTGGTGGAAGAGTGAACTG+TGG + chr6_2:8747490-8747509 None:intergenic 50.0%
!! GGAGTGGTTTTTGAAGGTGG+TGG + chr6_2:8747568-8747587 None:intergenic 50.0%
Chromosome Type Strat End Strand Name
chr6_2 gene 8747229 8747591 8747229 ID=Msa0907880;Name=Msa0907880
chr6_2 mRNA 8747229 8747591 8747229 ID=Msa0907880-mRNA-1;Parent=Msa0907880;Name=Msa0907880-mRNA-1;_AED=0.00;_eAED=0.11;_QI=0|-1|0|1|-1|1|1|0|120
chr6_2 exon 8747229 8747591 8747229 ID=Msa0907880-mRNA-1:exon:2116;Parent=Msa0907880-mRNA-1
chr6_2 CDS 8747229 8747591 8747229 ID=Msa0907880-mRNA-1:cds;Parent=Msa0907880-mRNA-1
Gene Sequence

>Msa0907880

ATGGCCTCCTATAGTTCCTTCATTTTAGCAATTTTCATTGCTATTTCCTTCTCAAACATGGACATTACCCTAGCAGTTCGCAATCTTCTTCAGACAACAAATCCAACTACACCAACACTTCCAAAACCAACATTGCCACCTTTGCCAACAATTCCAACATTGCCTCAAGGAAATGTTCCACCTTTGCCTACAATCCCAACATTGCCAAAACCTACTCAGCCATCTATTCCTAGTACTATCCCTACAATTCCAACTATTCCACAGTTCACTCTTCCACCACTTCCAAACATTCCTACTACAATCCCAATCACTATGCCAACATTCCCCTTCTTTTCTCCACCACCTTCAAAAACCACTCCTTGA
Protein sequence

>Msa0907880

MASYSSFILAIFIAISFSNMDITLAVRNLLQTTNPTTPTLPKPTLPPLPTIPTLPQGNVPPLPTIPTLPKPTQPSIPSTIPTIPTIPQFTLPPLPNIPTTIPITMPTFPFFSPPPSKTTP*