AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880047239.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880047239.01.T01 MTR_3g100100 94.017 117 4 1 1 114 106 222 9.05e-75 221
MsG0880047239.01.T01 MTR_8g068400 44.231 104 54 1 3 102 99 202 5.79e-20 81.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880047239.01.T01 AT5G65520 47.115 104 53 1 1 102 97 200 1.42e-20 82.8

Find 29 sgRNAs with CRISPR-Local

Find 27 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGAAGCAAAGAAAGTTTATA+AGG 0.280918 8:+83711739 MsG0880047239.01.T01:CDS
CACCAAGCTTTCGCGTTCTT+CGG 0.307624 8:-83711677 None:intergenic
GTGTTATGAAGGGAAGAAAA+TGG 0.346267 8:+83711712 MsG0880047239.01.T01:CDS
TAAGAGAGCTGAGTTGAAAC+TGG 0.425678 8:+83711589 MsG0880047239.01.T01:CDS
CTGTAGAATCGAATGTGTAT+AGG 0.435301 8:+83711795 MsG0880047239.01.T01:CDS
TTATAAGGAAGCTCATGAAT+TGG 0.437248 8:+83711754 MsG0880047239.01.T01:CDS
GTCCGAAGAACGCGAAAGCT+TGG 0.448178 8:+83711675 MsG0880047239.01.T01:CDS
GCGAAAGCTTGGTGTGCGTT+GGG 0.450050 8:+83711686 MsG0880047239.01.T01:CDS
CGCGAAAGCTTGGTGTGCGT+TGG 0.456259 8:+83711685 MsG0880047239.01.T01:CDS
TTCACCTTGCTCAAGCGAAC+CGG 0.466250 8:-83711549 None:intergenic
GCCATGATTCTCGATCTTCA+AGG 0.478220 8:+83711473 None:intergenic
CTATACACATTCGATTCTAC+AGG 0.500918 8:-83711794 None:intergenic
TGTAGAATCGAATGTGTATA+GGG 0.501591 8:+83711796 MsG0880047239.01.T01:CDS
ACGAGTTGACTCGGCGTTAG+CGG 0.514403 8:+83711628 MsG0880047239.01.T01:CDS
GTGTTGTCTCCTCTCGCCGC+CGG 0.558332 8:+83711530 MsG0880047239.01.T01:CDS
GCGTTGGGAGAGTGTTATGA+AGG 0.558916 8:+83711701 MsG0880047239.01.T01:CDS
ACCTTGAAGATCGAGAATCA+TGG 0.564050 8:-83711474 None:intergenic
TGAACGCGGACGAGTTGACT+CGG 0.566518 8:+83711619 MsG0880047239.01.T01:CDS
TGAAGGGAAGAAAATGGATG+AGG 0.575977 8:+83711718 MsG0880047239.01.T01:CDS
GCCGCCGGTTCGCTTGAGCA+AGG 0.596105 8:+83711545 MsG0880047239.01.T01:CDS
TCAAGCGAACCGGCGGCGAG+AGG 0.609088 8:-83711539 None:intergenic
ACCTTGCTCAAGCGAACCGG+CGG 0.627328 8:-83711546 None:intergenic
TCGCTTGAGCAAGGTGAACG+TGG 0.658644 8:+83711554 MsG0880047239.01.T01:CDS
CGTTGGGAGAGTGTTATGAA+GGG 0.659064 8:+83711702 MsG0880047239.01.T01:CDS
GTTAGCGGATTTGACTGAGT+CGG 0.668658 8:+83711643 MsG0880047239.01.T01:CDS
GGCGGCGAGAGGAGACAACA+CGG 0.678676 8:-83711528 None:intergenic
AAACTGGCGACGAGTGAACG+CGG 0.690837 8:+83711605 MsG0880047239.01.T01:CDS
GGCGTCGAGTGATTCAAGAG+CGG 0.740032 8:-83711507 None:intergenic
TCTACAGGCACAGAATACTG+TGG 0.755829 8:-83711779 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
GGAAGCAAAGAAAGTTTATA+AGG + Chr8:83711739-83711758 MsG0880047239.01.T01:CDS 30.0%
TGTAGAATCGAATGTGTATA+GGG + Chr8:83711796-83711815 MsG0880047239.01.T01:CDS 30.0%
TTATAAGGAAGCTCATGAAT+TGG + Chr8:83711754-83711773 MsG0880047239.01.T01:CDS 30.0%
CTATACACATTCGATTCTAC+AGG - Chr8:83711797-83711816 None:intergenic 35.0%
CTGTAGAATCGAATGTGTAT+AGG + Chr8:83711795-83711814 MsG0880047239.01.T01:CDS 35.0%
GTGTTATGAAGGGAAGAAAA+TGG + Chr8:83711712-83711731 MsG0880047239.01.T01:CDS 35.0%
TGAAGGGAAGAAAATGGATG+AGG + Chr8:83711718-83711737 MsG0880047239.01.T01:CDS 40.0%
! TAAGAGAGCTGAGTTGAAAC+TGG + Chr8:83711589-83711608 MsG0880047239.01.T01:CDS 40.0%
TCTACAGGCACAGAATACTG+TGG - Chr8:83711782-83711801 None:intergenic 45.0%
!! CGTTGGGAGAGTGTTATGAA+GGG + Chr8:83711702-83711721 MsG0880047239.01.T01:CDS 45.0%
!! GTTAGCGGATTTGACTGAGT+CGG + Chr8:83711643-83711662 MsG0880047239.01.T01:CDS 45.0%
CACCAAGCTTTCGCGTTCTT+CGG - Chr8:83711680-83711699 None:intergenic 50.0%
TTCACCTTGCTCAAGCGAAC+CGG - Chr8:83711552-83711571 None:intergenic 50.0%
!! GCGTTGGGAGAGTGTTATGA+AGG + Chr8:83711701-83711720 MsG0880047239.01.T01:CDS 50.0%
AAACTGGCGACGAGTGAACG+CGG + Chr8:83711605-83711624 MsG0880047239.01.T01:CDS 55.0%
GTCCGAAGAACGCGAAAGCT+TGG + Chr8:83711675-83711694 MsG0880047239.01.T01:CDS 55.0%
TCGCTTGAGCAAGGTGAACG+TGG + Chr8:83711554-83711573 MsG0880047239.01.T01:CDS 55.0%
! GGCGTCGAGTGATTCAAGAG+CGG - Chr8:83711510-83711529 None:intergenic 55.0%
! TGAACGCGGACGAGTTGACT+CGG + Chr8:83711619-83711638 MsG0880047239.01.T01:CDS 55.0%
!! ACGAGTTGACTCGGCGTTAG+CGG + Chr8:83711628-83711647 MsG0880047239.01.T01:CDS 55.0%
!! GCGAAAGCTTGGTGTGCGTT+GGG + Chr8:83711686-83711705 MsG0880047239.01.T01:CDS 55.0%
ACCTTGCTCAAGCGAACCGG+CGG - Chr8:83711549-83711568 None:intergenic 60.0%
!! CGCGAAAGCTTGGTGTGCGT+TGG + Chr8:83711685-83711704 MsG0880047239.01.T01:CDS 60.0%
GGCGGCGAGAGGAGACAACA+CGG - Chr8:83711531-83711550 None:intergenic 65.0%
GTGTTGTCTCCTCTCGCCGC+CGG + Chr8:83711530-83711549 MsG0880047239.01.T01:CDS 65.0%
TCAAGCGAACCGGCGGCGAG+AGG - Chr8:83711542-83711561 None:intergenic 70.0%
!! GCCGCCGGTTCGCTTGAGCA+AGG + Chr8:83711545-83711564 MsG0880047239.01.T01:CDS 70.0%
Chromosome Type Strat End Strand Name
Chr8 gene 83711476 83711826 83711476 ID=MsG0880047239.01;Name=MsG0880047239.01
Chr8 mRNA 83711476 83711826 83711476 ID=MsG0880047239.01.T01;Parent=MsG0880047239.01;Name=MsG0880047239.01.T01;_AED=0.07;_eAED=0.07;_QI=0|-1|0|1|-1|1|1|0|116
Chr8 exon 83711476 83711826 83711476 ID=MsG0880047239.01.T01:exon:19979;Parent=MsG0880047239.01.T01
Chr8 CDS 83711476 83711826 83711476 ID=MsG0880047239.01.T01:cds;Parent=MsG0880047239.01.T01
Gene Sequence

>MsG0880047239.01.T01

ATGATTCTCGATCTTCAAGGTTTTCGTACTTCCGCTCTTGAATCACTCGACGCCGTGTTGTCTCCTCTCGCCGCCGGTTCGCTTGAGCAAGGTGAACGTGGTGATGCGTTGTTTAAGAGAGCTGAGTTGAAACTGGCGACGAGTGAACGCGGACGAGTTGACTCGGCGTTAGCGGATTTGACTGAGTCGGTGATTTTGAGTCCGAAGAACGCGAAAGCTTGGTGTGCGTTGGGAGAGTGTTATGAAGGGAAGAAAATGGATGAGGAAGCAAAGAAAGTTTATAAGGAAGCTCATGAATTGGCGCCACAGTATTCTGTGCCTGTAGAATCGAATGTGTATAGGGTTGTTTGA
Protein sequence

>MsG0880047239.01.T01

MILDLQGFRTSALESLDAVLSPLAAGSLEQGERGDALFKRAELKLATSERGRVDSALADLTESVILSPKNAKAWCALGECYEGKKMDEEAKKVYKEAHELAPQYSVPVESNVYRVV*