AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG012763

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG012763 MtrunA17_Chr3g0087891 99.705 339 1 0 9 347 19 357 0.0 707
MsaG012763 MtrunA17_Chr3g0087881 51.456 309 126 6 9 312 18 307 8.60e-93 284
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG012763 AT3G08505.1 61.834 338 95 3 9 346 19 322 2.51e-152 431
MsaG012763 AT3G08505.2 61.834 338 95 3 9 346 19 322 2.51e-152 431
MsaG012763 AT3G08505.3 61.834 338 95 3 9 346 19 322 2.51e-152 431

Find 87 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTGATGTCTTTGGCAATTA+TGG 0.200868 3:-32131576 None:intergenic
TTACTTGAGCTTTGCCTTGT+AGG 0.248432 3:-32130234 None:intergenic
CAGAAAGGAGTTTGTGCTTA+TGG 0.262469 3:+32129489 MsaT012763.1:CDS
GACAATGCTTGCATCCTTTC+CGG 0.265577 3:+32129877 MsaT012763.1:CDS
GCGTATCGTGTATTAGAAAT+TGG 0.271742 3:+32130072 MsaT012763.1:CDS
TTGCGCAGATTCTTGATTCC+AGG 0.326851 3:-32129706 None:intergenic
AGGTAGCTTTGCGTCATCTT+GGG 0.329256 3:+32131537 MsaT012763.1:CDS
TTGTCGTTCCAAGTGTTATT+TGG 0.331364 3:+32130174 MsaT012763.1:CDS
CGTAGTAGTAACCCAACATT+AGG 0.336048 3:+32130095 MsaT012763.1:CDS
GAGGTAGCTTTGCGTCATCT+TGG 0.340448 3:+32131536 MsaT012763.1:CDS
CTAACATGCATTTAAGTTGA+AGG 0.345906 3:+32131691 MsaT012763.1:CDS
GTTGTATCACCAACATTATT+CGG 0.348521 3:-32129362 None:intergenic
ATTTGTTCATTTGCTGCTGC+TGG 0.363377 3:+32129792 MsaT012763.1:CDS
ATATGTTCTTCTCTTTCTTC+AGG 0.386226 3:-32129900 None:intergenic
TTGATTCCAGGCTTGTTCAC+TGG 0.388041 3:-32129694 None:intergenic
GGCGAAGGAAACTGCCCTTT+CGG 0.397193 3:+32130876 MsaT012763.1:CDS
GGATGTTAATAGCACATTGC+GGG 0.414993 3:+32130121 MsaT012763.1:CDS
AGAGAGAAACCTGATGTCTT+TGG 0.415002 3:-32131585 None:intergenic
TGATTCCAGGCTTGTTCACT+GGG 0.416070 3:-32129693 None:intergenic
TTCTTCCCAGTGAACAAGCC+TGG 0.423135 3:+32129688 MsaT012763.1:CDS
GTTTCAGAATCGGCTGTACT+TGG 0.435930 3:+32129597 MsaT012763.1:CDS
ACGGCAGCTGAGCGTAAGTT+TGG 0.437819 3:+32130020 MsaT012763.1:CDS
GTGCTTATGGTAGTCGCTGC+AGG 0.448946 3:+32129502 MsaT012763.1:CDS
CTGCGCAACTTGACTTCCTA+AGG 0.449537 3:+32129721 MsaT012763.1:CDS
TGAAACAAGGGGCTGGTGTT+CGG 0.458109 3:-32129580 None:intergenic
TAACATCCATCCCTAATGTT+GGG 0.466091 3:-32130106 None:intergenic
CCAGCCCCTTGTTTCAGAAT+CGG 0.469602 3:+32129587 MsaT012763.1:CDS
CGTCATCTTGGGGCTGCAGA+TGG 0.471622 3:+32131548 MsaT012763.1:CDS
TGTTCGGTTATTGAAGAAGA+TGG 0.473750 3:-32129564 None:intergenic
GGAAGATGATGTTGTTCAAT+CGG 0.474976 3:+32129743 MsaT012763.1:CDS
CCATAATTGCCAAAGACATC+AGG 0.475198 3:+32131576 MsaT012763.1:CDS
GAACAACATCATCTTCCCTT+AGG 0.486955 3:-32129737 None:intergenic
TTAACATCCATCCCTAATGT+TGG 0.488690 3:-32130107 None:intergenic
TAAGATAGCTTGCGACAGAT+AGG 0.489220 3:-32130149 None:intergenic
CGGTACCAGCTGCTTCTACA+AGG 0.490373 3:+32130896 MsaT012763.1:CDS
GCAGCAGCAAATGAACAAAT+CGG 0.492646 3:-32129789 None:intergenic
CTCATGGAGCGTGTCTGAAA+GGG 0.504961 3:+32129304 MsaT012763.1:intron
ACATGATGCCATCAGGTTGT+CGG 0.519944 3:+32131659 MsaT012763.1:intron
GCTCATGGAGCGTGTCTGAA+AGG 0.521682 3:+32129303 MsaT012763.1:intron
TCTCTTTCTTCAGGCCGGAA+AGG 0.522386 3:-32129891 None:intergenic
AACTTAAATGCATGTTAGCA+AGG 0.524697 3:-32131686 None:intergenic
CAACACCATTCGATGTAACT+CGG 0.526387 3:-32129626 None:intergenic
GTTCTTCTCTTTCTTCAGGC+CGG 0.528004 3:-32129896 None:intergenic
GAACAAATCGGAAGCTCAGA+AGG 0.538088 3:-32129777 None:intergenic
ATTTACCTTGTAGAAGCAGC+TGG 0.539288 3:-32130901 None:intergenic
TACAGCCGATTCTGAAACAA+GGG 0.542302 3:-32129592 None:intergenic
GTAGTAGTAACCCAACATTA+GGG 0.548465 3:+32130096 MsaT012763.1:CDS
GCGTGTTCTTTCAAAGCCTA+CGG 0.553172 3:+32130001 MsaT012763.1:CDS
GGTAGCTTTGCGTCATCTTG+GGG 0.557694 3:+32131538 MsaT012763.1:CDS
TGTTCACTGGGAAGAACAAA+GGG 0.561359 3:-32129681 None:intergenic
CCGATTCTGAAACAAGGGGC+TGG 0.563910 3:-32129587 None:intergenic
TAGAAGCAGCTGGTACCGAA+AGG 0.585374 3:-32130891 None:intergenic
TATCACCAACATTATTCGGA+GGG 0.587301 3:-32129358 None:intergenic
ATATCGTGATGGCCGTCTTG+AGG 0.591471 3:+32131514 MsaT012763.1:CDS
AGAAGCAGCTGGTACCGAAA+GGG 0.591507 3:-32130890 None:intergenic
CAAGCATTGTCTTCCACATG+AGG 0.592492 3:-32129865 None:intergenic
TTGTTCACTGGGAAGAACAA+AGG 0.593124 3:-32129682 None:intergenic
ATCACCAACATTATTCGGAG+GGG 0.593920 3:-32129357 None:intergenic
TAGTAACCCAACATTAGGGA+TGG 0.597655 3:+32130100 MsaT012763.1:CDS
AATACCCGAGTTACATCGAA+TGG 0.599856 3:+32129621 MsaT012763.1:CDS
TATTGAAGAAGATGGAGTAG+AGG 0.608961 3:-32129556 None:intergenic
GTAGCATACCAAATAACACT+TGG 0.613633 3:-32130182 None:intergenic
AAGCATTGTCTTCCACATGA+GGG 0.614385 3:-32129864 None:intergenic
TCGTGATGGCCGTCTTGAGG+AGG 0.617371 3:+32131517 MsaT012763.1:CDS
CATAAATCTCCGTGTACATG+AGG 0.617746 3:-32129840 None:intergenic
AACACCATTCGATGTAACTC+GGG 0.620122 3:-32129625 None:intergenic
TGCGCAACTTGACTTCCTAA+GGG 0.626387 3:+32129722 MsaT012763.1:CDS
GTATCACCAACATTATTCGG+AGG 0.630350 3:-32129359 None:intergenic
AGCATTGTCTTCCACATGAG+GGG 0.631001 3:-32129863 None:intergenic
GGAAATCATTGATACCTACA+AGG 0.631452 3:+32130220 MsaT012763.1:CDS
ATAATTTCGCCATGTCAAAG+AGG 0.631521 3:+32128270 None:intergenic
AACTTACGCTCAGCTGCCGT+AGG 0.632534 3:-32130017 None:intergenic
GCTTTGAAAGAACACGCTCA+AGG 0.633767 3:-32129995 None:intergenic
GGAGATTTATGCCCCTCATG+TGG 0.636320 3:+32129852 MsaT012763.1:CDS
TGAGGACATTGTTCCCCTCG+TGG 0.637218 3:-32129822 None:intergenic
GTACAGCCGATTCTGAAACA+AGG 0.638170 3:-32129593 None:intergenic
CTGCTGGAAACTGTCCACGA+GGG 0.638932 3:+32129808 MsaT012763.1:CDS
TGCTGGAAACTGTCCACGAG+GGG 0.639094 3:+32129809 MsaT012763.1:CDS
CTAATACACGATACGCAGAA+CGG 0.640856 3:-32130065 None:intergenic
TCTATCTTACCTCTTTGACA+TGG 0.648394 3:-32128279 None:intergenic
GAACAATGTCCTCATGTACA+CGG 0.651566 3:+32129831 MsaT012763.1:CDS
TTGCAGCATGCATATCGTGA+TGG 0.670081 3:+32131503 MsaT012763.1:intron
AAATAAGCAAAAGCATCTCG+AGG 0.674626 3:+32129935 MsaT012763.1:CDS
GCTGCTGGAAACTGTCCACG+AGG 0.694625 3:+32129807 MsaT012763.1:CDS
TGGATGTTAATAGCACATTG+CGG 0.695653 3:+32130120 MsaT012763.1:CDS
ACAGCCGATTCTGAAACAAG+GGG 0.720447 3:-32129591 None:intergenic
GCAAAGCTACCTCCTCAAGA+CGG 0.724386 3:-32131526 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 32128281 32131710 32128281 ID=MsaG012763
Chr3 mRNA 32128281 32131710 32128281 ID=MsaT012763.1;Parent=MsaG012763
Chr3 exon 32128281 32128291 32128281 ID=MsaT012763.1.exon1;Parent=MsaT012763.1
Chr3 CDS 32128281 32128291 32128281 ID=cds.MsaT012763.1;Parent=MsaT012763.1
Chr3 exon 32129313 32129370 32129313 ID=MsaT012763.1.exon2;Parent=MsaT012763.1
Chr3 CDS 32129313 32129370 32129313 ID=cds.MsaT012763.1;Parent=MsaT012763.1
Chr3 exon 32129474 32130252 32129474 ID=MsaT012763.1.exon3;Parent=MsaT012763.1
Chr3 CDS 32129474 32130252 32129474 ID=cds.MsaT012763.1;Parent=MsaT012763.1
Chr3 exon 32130848 32130917 32130848 ID=MsaT012763.1.exon4;Parent=MsaT012763.1
Chr3 CDS 32130848 32130917 32130848 ID=cds.MsaT012763.1;Parent=MsaT012763.1
Chr3 exon 32131509 32131597 32131509 ID=MsaT012763.1.exon5;Parent=MsaT012763.1
Chr3 CDS 32131509 32131597 32131509 ID=cds.MsaT012763.1;Parent=MsaT012763.1
Chr3 exon 32131674 32131710 32131674 ID=MsaT012763.1.exon6;Parent=MsaT012763.1
Chr3 CDS 32131674 32131710 32131674 ID=cds.MsaT012763.1;Parent=MsaT012763.1
Gene Sequence

>MsaT012763.1

ATGTCAAAGAGCGTGTCTGAAAGGGAGCATTGTGAATTTTCTCATGACTGGAAAGCCCCTCCGAATAATATATGCACATTTTATCAGAAAGGAGTTTGTGCTTATGGTAGTCGCTGCAGGTATGATCATGTCAAAGCTTCTCGAGCACAGTCCTCTACTCCATCTTCTTCAATAACCGAACACCAGCCCCTTGTTTCAGAATCGGCTGTACTTGGTAATACCCGAGTTACATCGAATGGTGTTGCTACAGCTGCAGAATTTTCTCTTTTCAGCACTCCCTTTGTTCTTCCCAGTGAACAAGCCTGGAATCAAGAATCTGCGCAACTTGACTTCCTAAGGGAAGATGATGTTGTTCAATCGGTAATTACTTCACCTTCTGAGCTTCCGATTTGTTCATTTGCTGCTGCTGGAAACTGTCCACGAGGGGAACAATGTCCTCATGTACACGGAGATTTATGCCCCTCATGTGGAAGACAATGCTTGCATCCTTTCCGGCCTGAAGAAAGAGAAGAACATATGATGAGTTGCAAAAATAAGCAAAAGCATCTCGAGGCATTGAAAAGAAGTCAAGAAATTGAATGCAGTGTTTGCCTTGAGCGTGTTCTTTCAAAGCCTACGGCAGCTGAGCGTAAGTTTGGTCTGCTATCTGAATGCGATCATCCGTTCTGCGTATCGTGTATTAGAAATTGGCGTAGTAGTAACCCAACATTAGGGATGGATGTTAATAGCACATTGCGGGCTTGTCCTATCTGTCGCAAGCTATCTTACTTTGTCGTTCCAAGTGTTATTTGGTATGCTACAAGTGAAGAAAAAATGGAAATCATTGATACCTACAAGGCAAAGCTCAAGTCAATTGATTGCAAGCATTTTGACTTTGGCGAAGGAAACTGCCCTTTCGGTACCAGCTGCTTCTACAAGCATGCATATCGTGATGGCCGTCTTGAGGAGGTAGCTTTGCGTCATCTTGGGGCTGCAGATGGCGACACCATAATTGCCAAAGACATCAGGTTGTCGGATTTCCTTGCTAACATGCATTTAAGTTGA
Protein sequence

>MsaT012763.1

MSKSVSEREHCEFSHDWKAPPNNICTFYQKGVCAYGSRCRYDHVKASRAQSSTPSSSITEHQPLVSESAVLGNTRVTSNGVATAAEFSLFSTPFVLPSEQAWNQESAQLDFLREDDVVQSVITSPSELPICSFAAAGNCPRGEQCPHVHGDLCPSCGRQCLHPFRPEEREEHMMSCKNKQKHLEALKRSQEIECSVCLERVLSKPTAAERKFGLLSECDHPFCVSCIRNWRSSNPTLGMDVNSTLRACPICRKLSYFVVPSVIWYATSEEKMEIIDTYKAKLKSIDCKHFDFGEGNCPFGTSCFYKHAYRDGRLEEVALRHLGAADGDTIIAKDIRLSDFLANMHLS*