AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180001270.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180001270.01.T01 MTR_1g034260 96.875 128 3 1 1 128 1 127 1.50e-83 240
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180001270.01.T01 AT2G26500 59.542 131 42 4 1 128 1 123 2.82e-42 136
MsG0180001270.01.T01 AT2G26500 59.542 131 42 4 1 128 1 123 2.82e-42 136
MsG0180001270.01.T01 AT2G26500 41.860 129 36 4 1 128 1 91 4.91e-21 81.3

Find 23 sgRNAs with CRISPR-Local

Find 23 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTCTTCCTCCTCCATTTGA+TGG 0.210124 1:-18564793 None:intergenic
CTTCTTAGTACTCCTTGATT+TGG 0.303862 1:-18564635 None:intergenic
GTTGTAGGAAGCTCAGTTAT+TGG 0.363386 1:+18564610 MsG0180001270.01.T01:CDS
CCATCTACAATCACTGTTGT+AGG 0.380548 1:+18564595 MsG0180001270.01.T01:CDS
CAGATTGCAGCTATTATGAA+TGG 0.399606 1:+18564862 MsG0180001270.01.T01:CDS
ACTCTTGTTGGTGTTGCTGT+TGG 0.440680 1:+18564889 MsG0180001270.01.T01:CDS
ATGAATGGACTTACTCTTGT+TGG 0.442389 1:+18564877 MsG0180001270.01.T01:CDS
ACAGGATTGAACTCTTTCAA+TGG 0.452442 1:+18564679 MsG0180001270.01.T01:CDS
GGAGGAAGAAGAGGAGGTGC+AGG 0.460861 1:+18564805 MsG0180001270.01.T01:CDS
CCTACAACAGTGATTGTAGA+TGG 0.469531 1:-18564595 None:intergenic
AAAGCTTGTTCAGTGCATAT+AGG 0.477413 1:-18564742 None:intergenic
CAAATCAAGGAGTACTAAGA+AGG 0.488070 1:+18564636 MsG0180001270.01.T01:CDS
TCATTGAAATATCCATCAAA+TGG 0.499884 1:+18564781 MsG0180001270.01.T01:CDS
CAGTTATTGGTACCAAATCA+AGG 0.536139 1:+18564623 MsG0180001270.01.T01:CDS
TCATCAAGATGTAATGCTGC+AGG 0.541244 1:+18564829 MsG0180001270.01.T01:CDS
AACAATGTGAAGTTTATCAC+AGG 0.543588 1:+18564661 MsG0180001270.01.T01:CDS
TCAAATGGAGGAGGAAGAAG+AGG 0.566468 1:+18564796 MsG0180001270.01.T01:CDS
AAATCAAGGAGTACTAAGAA+GGG 0.580162 1:+18564637 MsG0180001270.01.T01:CDS
AAATATCCATCAAATGGAGG+AGG 0.584326 1:+18564787 MsG0180001270.01.T01:CDS
AATGGAGGAGGAAGAAGAGG+AGG 0.611502 1:+18564799 MsG0180001270.01.T01:CDS
TTGAAATATCCATCAAATGG+AGG 0.614695 1:+18564784 MsG0180001270.01.T01:CDS
AACAGCACTGTGACATCACT+AGG 0.621698 1:+18564715 MsG0180001270.01.T01:CDS
TGTAGATGGAGTTGTTGCTG+AGG 0.669064 1:-18564581 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TCATTGAAATATCCATCAAA+TGG + Chr1:18564781-18564800 MsG0180001270.01.T01:CDS 25.0%
AACAATGTGAAGTTTATCAC+AGG + Chr1:18564661-18564680 MsG0180001270.01.T01:CDS 30.0%
TTGAAATATCCATCAAATGG+AGG + Chr1:18564784-18564803 MsG0180001270.01.T01:CDS 30.0%
!! AAATCAAGGAGTACTAAGAA+GGG + Chr1:18564637-18564656 MsG0180001270.01.T01:CDS 30.0%
AAATATCCATCAAATGGAGG+AGG + Chr1:18564787-18564806 MsG0180001270.01.T01:CDS 35.0%
ACAGGATTGAACTCTTTCAA+TGG + Chr1:18564679-18564698 MsG0180001270.01.T01:CDS 35.0%
CAGATTGCAGCTATTATGAA+TGG + Chr1:18564862-18564881 MsG0180001270.01.T01:CDS 35.0%
CAGTTATTGGTACCAAATCA+AGG + Chr1:18564623-18564642 MsG0180001270.01.T01:CDS 35.0%
CTTCTTAGTACTCCTTGATT+TGG - Chr1:18564638-18564657 None:intergenic 35.0%
! AAAGCTTGTTCAGTGCATAT+AGG - Chr1:18564745-18564764 None:intergenic 35.0%
! ATGAATGGACTTACTCTTGT+TGG + Chr1:18564877-18564896 MsG0180001270.01.T01:CDS 35.0%
!! CAAATCAAGGAGTACTAAGA+AGG + Chr1:18564636-18564655 MsG0180001270.01.T01:CDS 35.0%
CCATCTACAATCACTGTTGT+AGG + Chr1:18564595-18564614 MsG0180001270.01.T01:CDS 40.0%
CCTACAACAGTGATTGTAGA+TGG - Chr1:18564598-18564617 None:intergenic 40.0%
GTTGTAGGAAGCTCAGTTAT+TGG + Chr1:18564610-18564629 MsG0180001270.01.T01:CDS 40.0%
TCATCAAGATGTAATGCTGC+AGG + Chr1:18564829-18564848 MsG0180001270.01.T01:CDS 40.0%
AACAGCACTGTGACATCACT+AGG + Chr1:18564715-18564734 MsG0180001270.01.T01:CDS 45.0%
CTTCTTCCTCCTCCATTTGA+TGG - Chr1:18564796-18564815 None:intergenic 45.0%
TCAAATGGAGGAGGAAGAAG+AGG + Chr1:18564796-18564815 MsG0180001270.01.T01:CDS 45.0%
TGTAGATGGAGTTGTTGCTG+AGG - Chr1:18564584-18564603 None:intergenic 45.0%
!! ACTCTTGTTGGTGTTGCTGT+TGG + Chr1:18564889-18564908 MsG0180001270.01.T01:CDS 45.0%
AATGGAGGAGGAAGAAGAGG+AGG + Chr1:18564799-18564818 MsG0180001270.01.T01:CDS 50.0%
! GGAGGAAGAAGAGGAGGTGC+AGG + Chr1:18564805-18564824 MsG0180001270.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr1 gene 18564571 18564957 18564571 ID=MsG0180001270.01;Name=MsG0180001270.01
Chr1 mRNA 18564571 18564957 18564571 ID=MsG0180001270.01.T01;Parent=MsG0180001270.01;Name=MsG0180001270.01.T01;_AED=0.49;_eAED=0.49;_QI=0|-1|0|1|-1|1|1|0|128
Chr1 exon 18564571 18564957 18564571 ID=MsG0180001270.01.T01:exon:32459;Parent=MsG0180001270.01.T01
Chr1 CDS 18564571 18564957 18564571 ID=MsG0180001270.01.T01:cds;Parent=MsG0180001270.01.T01
Gene Sequence

>MsG0180001270.01.T01

ATGGCTACAGCCTCAGCAACAACTCCATCTACAATCACTGTTGTAGGAAGCTCAGTTATTGGTACCAAATCAAGGAGTACTAAGAAGGGTAACAATGTGAAGTTTATCACAGGATTGAACTCTTTCAATGGATTGAAAGCACAGAACAGCACTGTGACATCACTAGGAGTTCCTATATGCACTGAACAAGCTTTTGCAAAAGTGATGAGTTCATTGAAATATCCATCAAATGGAGGAGGAAGAAGAGGAGGTGCAGGTTCATCAAGATGTAATGCTGCAGGTGAGATTTTTCAGATTGCAGCTATTATGAATGGACTTACTCTTGTTGGTGTTGCTGTTGGATTTGTTCTTCTTCGAATTGAAGCAGCTGTTGAAGAAGCTGAGTAA

Protein sequence

>MsG0180001270.01.T01

MATASATTPSTITVVGSSVIGTKSRSTKKGNNVKFITGLNSFNGLKAQNSTVTSLGVPICTEQAFAKVMSSLKYPSNGGGRRGGAGSSRCNAAGEIFQIAAIMNGLTLVGVAVGFVLLRIEAAVEEAE*