AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0974810


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0974810 MtrunA17_Chr6g0453501 97.000 100 3 0 1 100 156 255 3.38e-69 207
Msa0974810 MtrunA17_Chr8g0372791 88.000 100 12 0 1 100 126 225 5.29e-61 185
Msa0974810 MtrunA17_Chr1g0160431 30.693 101 66 1 4 100 136 236 6.07e-11 56.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0974810 AT2G43630.1 45.192 104 53 1 1 100 159 262 3.92e-23 90.1
Msa0974810 AT3G59640.2 52.941 68 32 0 3 70 155 222 7.50e-19 78.2
Msa0974810 AT3G59640.1 52.941 68 32 0 3 70 155 222 7.50e-19 78.2

Find 19 sgRNAs with CRISPR-Local

Find 33 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGTCTTTACTCATTTGAATT+TGG 0.200623 6_4:+8204053 None:intergenic
ATAAAATCGTGAACATTTGT+AGG 0.327741 6_4:+8204184 None:intergenic
AACAATTGGCTTTATGTTTG+TGG 0.375395 6_4:-8204623 Msa0974810:intron
CAGTACATTTACGTCATCAA+TGG 0.432744 6_4:-8204287 Msa0974810:CDS
TGGAACTTACAAAGCTAGCT+AGG 0.464106 6_4:-8204262 Msa0974810:CDS
TTGTTGCGAAAACGATTTGA+AGG 0.471784 6_4:+8204641 None:intergenic
TTGGTTTCATGTAATTCCTA+AGG 0.481534 6_4:+8204072 None:intergenic
TGAAGTTGATGAGGATGGGT+TGG 0.503777 6_4:-8204141 Msa0974810:CDS
CAAAATGAAGTTGATGAGGA+TGG 0.507153 6_4:-8204146 Msa0974810:CDS
TCAGCGATGTTCCATCGTAA+TGG 0.530531 6_4:+8204110 None:intergenic
GACTTCATCAAGTATCTGCT+TGG 0.531487 6_4:-8204239 Msa0974810:CDS
TTCATCAAGTATCTGCTTGG+TGG 0.544571 6_4:-8204236 Msa0974810:CDS
TCAGAGTGTTCGATTAAAGC+GGG 0.573216 6_4:-8204210 Msa0974810:CDS
TGTTGCGAAAACGATTTGAA+GGG 0.589685 6_4:+8204642 None:intergenic
CTCAGAGTGTTCGATTAAAG+CGG 0.615087 6_4:-8204211 Msa0974810:CDS
AAAATGAAGTTGATGAGGAT+GGG 0.619629 6_4:-8204145 Msa0974810:CDS
GGAACTTACAAAGCTAGCTA+GGG 0.623202 6_4:-8204261 Msa0974810:CDS
CATTTACGTCATCAATGGCG+TGG 0.640926 6_4:-8204282 Msa0974810:CDS
TGGGCAAAATGAAGTTGATG+AGG 0.652335 6_4:-8204150 Msa0974810:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATTCTCTTGTCAAAAAATA+AGG - chr6_4:8204192-8204211 Msa0974810:CDS 20.0%
!!! GATTTTATAAGAAGATTACT+GGG - chr6_4:8204544-8204563 Msa0974810:intron 20.0%
!!! CATAACAATGTTTGTTTTCA+TGG - chr6_4:8204239-8204258 Msa0974810:CDS 25.0%
! CACTTCAGAAATTATTATCA+AGG - chr6_4:8204351-8204370 Msa0974810:intron 25.0%
! AAATGTACTGCAAAAAATGT+AGG + chr6_4:8204416-8204435 None:intergenic 25.0%
! ATAAAATCGTGAACATTTGT+AGG + chr6_4:8204532-8204551 None:intergenic 25.0%
!! CGATTTTATAAGAAGATTAC+TGG - chr6_4:8204543-8204562 Msa0974810:intron 25.0%
!! AACAATTGGCTTTATGTTTG+TGG - chr6_4:8204090-8204109 Msa0974810:CDS 30.0%
ATGAGTAGATTAAGTGAGTA+AGG + chr6_4:8204158-8204177 None:intergenic 30.0%
!! AAAATGAAGTTGATGAGGAT+GGG - chr6_4:8204568-8204587 Msa0974810:intron 30.0%
! ATTTTTATCGAGATGTCCTT+AGG - chr6_4:8204625-8204644 Msa0974810:CDS 30.0%
TTGGTTTCATGTAATTCCTA+AGG + chr6_4:8204644-8204663 None:intergenic 30.0%
TGTTGCGAAAACGATTTGAA+GGG + chr6_4:8204074-8204093 None:intergenic 35.0%
TTGTTGCGAAAACGATTTGA+AGG + chr6_4:8204075-8204094 None:intergenic 35.0%
! CAAATCGTTTTCGCAACAAT+TGG - chr6_4:8204076-8204095 Msa0974810:CDS 35.0%
AAGTGAGTAAGGAAGCAATT+AGG + chr6_4:8204147-8204166 None:intergenic 35.0%
AACATTCATATTCCAACGCT+TGG - chr6_4:8204317-8204336 Msa0974810:intron 35.0%
CAGTACATTTACGTCATCAA+TGG - chr6_4:8204426-8204445 Msa0974810:intron 35.0%
!! CAAAATGAAGTTGATGAGGA+TGG - chr6_4:8204567-8204586 Msa0974810:intron 35.0%
GGTCACTAATGCATACATGA+TGG - chr6_4:8204260-8204279 Msa0974810:CDS 40.0%
ATTCCAACGCTTGGTTATCT+AGG - chr6_4:8204326-8204345 Msa0974810:intron 40.0%
TGGAACTTACAAAGCTAGCT+AGG - chr6_4:8204451-8204470 Msa0974810:intron 40.0%
GGAACTTACAAAGCTAGCTA+GGG - chr6_4:8204452-8204471 Msa0974810:intron 40.0%
GACTTCATCAAGTATCTGCT+TGG - chr6_4:8204474-8204493 Msa0974810:intron 40.0%
TTCATCAAGTATCTGCTTGG+TGG - chr6_4:8204477-8204496 Msa0974810:intron 40.0%
! CTCAGAGTGTTCGATTAAAG+CGG - chr6_4:8204502-8204521 Msa0974810:intron 40.0%
! TCAGAGTGTTCGATTAAAGC+GGG - chr6_4:8204503-8204522 Msa0974810:intron 40.0%
!! TGGGCAAAATGAAGTTGATG+AGG - chr6_4:8204563-8204582 Msa0974810:intron 40.0%
TGGAAAAAGCTCCATTACGA+TGG - chr6_4:8204592-8204611 Msa0974810:intron 40.0%
GATCCTAGATAACCAAGCGT+TGG + chr6_4:8204332-8204351 None:intergenic 45.0%
CATTTACGTCATCAATGGCG+TGG - chr6_4:8204431-8204450 Msa0974810:intron 45.0%
!! TGAAGTTGATGAGGATGGGT+TGG - chr6_4:8204572-8204591 Msa0974810:intron 45.0%
TCAGCGATGTTCCATCGTAA+TGG + chr6_4:8204606-8204625 None:intergenic 45.0%
Chromosome Type Strat End Strand Name
chr6_4 gene 8204058 8204677 8204058 ID=Msa0974810;Name=Msa0974810
chr6_4 mRNA 8204058 8204677 8204058 ID=Msa0974810-mRNA-1;Parent=Msa0974810;Name=Msa0974810-mRNA-1;_AED=0.40;_eAED=0.40;_QI=0|0|0|1|1|1|2|0|100
chr6_4 exon 8204624 8204677 8204624 ID=Msa0974810-mRNA-1:exon:3066;Parent=Msa0974810-mRNA-1
chr6_4 exon 8204058 8204306 8204058 ID=Msa0974810-mRNA-1:exon:3065;Parent=Msa0974810-mRNA-1
chr6_4 CDS 8204624 8204677 8204624 ID=Msa0974810-mRNA-1:cds;Parent=Msa0974810-mRNA-1
chr6_4 CDS 8204058 8204306 8204058 ID=Msa0974810-mRNA-1:cds;Parent=Msa0974810-mRNA-1
Gene Sequence

>Msa0974810

ATGTCAGATGAGACCCTTCAAATCGTTTTCGCAACAATTGGCTTTATGTTTGTGTACATTTACGTCATCAATGGCGTGGAACTTACAAAGCTAGCTAGGGACTTCATCAAGTATCTGCTTGGTGGAACTCAGAGTGTTCGATTAAAGCGGGCATCCTACAAATGTTCACGATTTTATAAGAAGATTACTGGGCAAAATGAAGTTGATGAGGATGGGTTGGAAAAAGCTCCATTACGATGGAACATCGCTGATTTTTATCGAGATGTCCTTAGGAATTACATGAAACCAAATTCAAATGAGTAA

Protein sequence

>Msa0974810

MSDETLQIVFATIGFMFVYIYVINGVELTKLARDFIKYLLGGTQSVRLKRASYKCSRFYKKITGQNEVDEDGLEKAPLRWNIADFYRDVLRNYMKPNSNE*