AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680030592.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680030592.01.T01 MTR_6g007720 94.410 161 8 1 1 160 384 544 3.86e-88 268
MsG0680030592.01.T01 MTR_8g063760 33.758 157 72 5 2 156 375 501 8.22e-16 74.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 27 sgRNAs with CRISPR-Local

Find 32 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATATTATGGTGACTAATTT+TGG 0.094506 6:-5770606 None:intergenic
CTTTCTGTTTGTCTATTTAT+CGG 0.265414 6:-5770303 None:intergenic
TTAACCTAGGACGAATATTA+TGG 0.294288 6:-5770619 None:intergenic
AACATATCCTTACACAAATA+AGG 0.301836 6:+5770212 MsG0680030592.01.T01:CDS
AGACGAACCACCTCCTAATA+TGG 0.307802 6:+5770164 MsG0680030592.01.T01:CDS
TTCTTCTCATAGTAACTTGA+TGG 0.330394 6:-5770492 None:intergenic
GTGATAAAGGCTGTGGATTA+TGG 0.344089 6:+5770579 MsG0680030592.01.T01:CDS
TCCAATTCCTTATTTGTGTA+AGG 0.362977 6:-5770219 None:intergenic
TCCTTACACAAATAAGGAAT+TGG 0.383764 6:+5770218 MsG0680030592.01.T01:CDS
ACGTGAGGCTATGGTGATAA+AGG 0.389534 6:+5770566 MsG0680030592.01.T01:CDS
ATCACAAAACTTTCTTGCAT+TGG 0.425594 6:-5770132 None:intergenic
AAATAAGGAATTGGAAATGT+TGG 0.447134 6:+5770227 MsG0680030592.01.T01:CDS
GAGACAAATGAGATTGTGTT+TGG 0.461655 6:+5770519 MsG0680030592.01.T01:CDS
TTTGTTTCCATATTAGGAGG+TGG 0.490274 6:-5770171 None:intergenic
GTTTGTCTATTTATCGGCAC+AGG 0.491919 6:-5770297 None:intergenic
CTATTTATCGGCACAGGCGG+AGG 0.494553 6:-5770291 None:intergenic
GTCACCATAATATTCGTCCT+AGG 0.538572 6:+5770615 MsG0680030592.01.T01:CDS
GGAGGTGGTTCGTCTCCGTC+CGG 0.539939 6:-5770156 None:intergenic
CTTTGCACCTTCGAATGTTG+TGG 0.557658 6:-5770450 None:intergenic
GGCTATGGTGATAAAGGCTG+TGG 0.569335 6:+5770572 MsG0680030592.01.T01:CDS
TGATGGAAGACGTGAGGCTA+TGG 0.581508 6:+5770557 MsG0680030592.01.T01:CDS
TGTCTATTTATCGGCACAGG+CGG 0.589980 6:-5770294 None:intergenic
GGTGCAGTTCAAGAACATGA+TGG 0.596214 6:+5770540 MsG0680030592.01.T01:CDS
CTAACATGTTCAAGTATGCA+CGG 0.626965 6:-5770344 None:intergenic
GTAACCAACATATTTAACCT+AGG 0.648385 6:-5770632 None:intergenic
TCAACAACCACAACATTCGA+AGG 0.656042 6:+5770443 MsG0680030592.01.T01:CDS
AGAACATGATGGAAGACGTG+AGG 0.685866 6:+5770551 MsG0680030592.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AATATTATGGTGACTAATTT+TGG - Chr6:5770609-5770628 None:intergenic 20.0%
! AAATAAGGAATTGGAAATGT+TGG + Chr6:5770227-5770246 MsG0680030592.01.T01:CDS 25.0%
! AACATATCCTTACACAAATA+AGG + Chr6:5770212-5770231 MsG0680030592.01.T01:CDS 25.0%
! CTTTCTGTTTGTCTATTTAT+CGG - Chr6:5770306-5770325 None:intergenic 25.0%
! TTGGAAAAAACAAGAGATAA+CGG + Chr6:5770246-5770265 MsG0680030592.01.T01:CDS 25.0%
AAACAAAAACACCTTCACAA+AGG + Chr6:5770187-5770206 MsG0680030592.01.T01:CDS 30.0%
TCCTTACACAAATAAGGAAT+TGG + Chr6:5770218-5770237 MsG0680030592.01.T01:CDS 30.0%
TTAACCTAGGACGAATATTA+TGG - Chr6:5770622-5770641 None:intergenic 30.0%
TTCTTCTCATAGTAACTTGA+TGG - Chr6:5770495-5770514 None:intergenic 30.0%
! TCCAATTCCTTATTTGTGTA+AGG - Chr6:5770222-5770241 None:intergenic 30.0%
!! GGTGTTTTTGTTTCCATATT+AGG - Chr6:5770180-5770199 None:intergenic 30.0%
!! GTTTTTGTTTCCATATTAGG+AGG - Chr6:5770177-5770196 None:intergenic 30.0%
CTAACATGTTCAAGTATGCA+CGG - Chr6:5770347-5770366 None:intergenic 35.0%
GAGACAAATGAGATTGTGTT+TGG + Chr6:5770519-5770538 MsG0680030592.01.T01:CDS 35.0%
TTTGTTTCCATATTAGGAGG+TGG - Chr6:5770174-5770193 None:intergenic 35.0%
! GGATATGTTTTCCTTTGTGA+AGG - Chr6:5770201-5770220 None:intergenic 35.0%
!! GCAAGAAAGTTTTGTGATTC+CGG + Chr6:5770137-5770156 MsG0680030592.01.T01:CDS 35.0%
GTCACCATAATATTCGTCCT+AGG + Chr6:5770615-5770634 MsG0680030592.01.T01:CDS 40.0%
GTTTGTCTATTTATCGGCAC+AGG - Chr6:5770300-5770319 None:intergenic 40.0%
TCAACAACCACAACATTCGA+AGG + Chr6:5770443-5770462 MsG0680030592.01.T01:CDS 40.0%
! GTGATAAAGGCTGTGGATTA+TGG + Chr6:5770579-5770598 MsG0680030592.01.T01:CDS 40.0%
!! GAAAGTTTTGTGATTCCGGA+CGG + Chr6:5770141-5770160 MsG0680030592.01.T01:CDS 40.0%
ACGTGAGGCTATGGTGATAA+AGG + Chr6:5770566-5770585 MsG0680030592.01.T01:CDS 45.0%
AGACGAACCACCTCCTAATA+TGG + Chr6:5770164-5770183 MsG0680030592.01.T01:CDS 45.0%
CTTTGCACCTTCGAATGTTG+TGG - Chr6:5770453-5770472 None:intergenic 45.0%
GGTGCAGTTCAAGAACATGA+TGG + Chr6:5770540-5770559 MsG0680030592.01.T01:CDS 45.0%
TGTCTATTTATCGGCACAGG+CGG - Chr6:5770297-5770316 None:intergenic 45.0%
! AGAACATGATGGAAGACGTG+AGG + Chr6:5770551-5770570 MsG0680030592.01.T01:CDS 45.0%
GGCTATGGTGATAAAGGCTG+TGG + Chr6:5770572-5770591 MsG0680030592.01.T01:CDS 50.0%
TGATGGAAGACGTGAGGCTA+TGG + Chr6:5770557-5770576 MsG0680030592.01.T01:CDS 50.0%
CTATTTATCGGCACAGGCGG+AGG - Chr6:5770294-5770313 None:intergenic 55.0%
GGAGGTGGTTCGTCTCCGTC+CGG - Chr6:5770159-5770178 None:intergenic 65.0%
Chromosome Type Strat End Strand Name
Chr6 gene 5770135 5770641 5770135 ID=MsG0680030592.01;Name=MsG0680030592.01
Chr6 mRNA 5770135 5770641 5770135 ID=MsG0680030592.01.T01;Parent=MsG0680030592.01;Name=MsG0680030592.01.T01;_AED=0.38;_eAED=0.38;_QI=0|-1|0|1|-1|1|1|0|168
Chr6 exon 5770135 5770641 5770135 ID=MsG0680030592.01.T01:exon:5779;Parent=MsG0680030592.01.T01
Chr6 CDS 5770135 5770641 5770135 ID=MsG0680030592.01.T01:cds;Parent=MsG0680030592.01.T01
Gene Sequence

>MsG0680030592.01.T01

ATGCAAGAAAGTTTTGTGATTCCGGACGGAGACGAACCACCTCCTAATATGGAAACAAAAACACCTTCACAAAGGAAAACATATCCTTACACAAATAAGGAATTGGAAATGTTGGAAAAAACAAGAGATAACGGTTTCTATGAAACAAATATTTTTCCTCCGCCTGTGCCGATAAATAGACAAACAGAAAGTACAATTTCAAAGCACAACCGTGCATACTTGAACATGTTAGACAAAAGTTATGAACATGATCAACAACTACAGCATCATCATCATCATCAAGAACAACAACAACATCAAAATCATCATCAACAACCACAACATTCGAAGGTGCAAAGTCATTATTCTTCGACTACTCCATCAAGTTACTATGAGAAGAATTGTGAGACAAATGAGATTGTGTTTGGTGCAGTTCAAGAACATGATGGAAGACGTGAGGCTATGGTGATAAAGGCTGTGGATTATGGTGATCCAAAATTAGTCACCATAATATTCGTCCTAGGTTAA
Protein sequence

>MsG0680030592.01.T01

MQESFVIPDGDEPPPNMETKTPSQRKTYPYTNKELEMLEKTRDNGFYETNIFPPPVPINRQTESTISKHNRAYLNMLDKSYEHDQQLQHHHHHQEQQQHQNHHQQPQHSKVQSHYSSTTPSSYYEKNCETNEIVFGAVQEHDGRREAMVIKAVDYGDPKLVTIIFVLG*