AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1405770


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1405770 MtrunA17_Chr1g0162471 96.875 128 3 1 1 128 1 127 1.14e-83 240
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1405770 AT2G26500.2 59.542 131 42 4 1 128 1 123 2.82e-42 136
Msa1405770 AT2G26500.1 59.542 131 42 4 1 128 1 123 2.82e-42 136
Msa1405770 AT2G26500.3 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 tig0023172:-19757 None:intergenic
CTTCTTAGTACTCCTTGATT+TGG 0.303862 tig0023172:-19599 None:intergenic
GTTGTAGGAAGCTCAGTTAT+TGG 0.363386 tig0023172:+19574 Msa1405770:CDS
CCATCTACAATCACTGTTGT+AGG 0.380548 tig0023172:+19559 Msa1405770:CDS
CAGATTGCAGCTATTATGAA+TGG 0.399606 tig0023172:+19826 Msa1405770:CDS
ACTCTTGTTGGTGTTGCTGT+TGG 0.440680 tig0023172:+19853 Msa1405770:CDS
ATGAATGGACTTACTCTTGT+TGG 0.442389 tig0023172:+19841 Msa1405770:CDS
ACAGGATTGAACTCTTTCAA+TGG 0.452442 tig0023172:+19643 Msa1405770:CDS
GGAGGAAGAAGAGGAGGTGC+AGG 0.460861 tig0023172:+19769 Msa1405770:CDS
CCTACAACAGTGATTGTAGA+TGG 0.469531 tig0023172:-19559 None:intergenic
AAAGCTTGTTCAGTGCATAT+AGG 0.477413 tig0023172:-19706 None:intergenic
CAAATCAAGGAGTACTAAGA+AGG 0.488070 tig0023172:+19600 Msa1405770:CDS
TCATTGAAATATCCATCAAA+TGG 0.499884 tig0023172:+19745 Msa1405770:CDS
CAGTTATTGGTACCAAATCA+AGG 0.536139 tig0023172:+19587 Msa1405770:CDS
TCATCAAGATGTAATGCTGC+AGG 0.541244 tig0023172:+19793 Msa1405770:CDS
AACAATGTGAAGTTTATCAC+AGG 0.543588 tig0023172:+19625 Msa1405770:CDS
TCAAATGGAGGAGGAAGAAG+AGG 0.566468 tig0023172:+19760 Msa1405770:CDS
AAATCAAGGAGTACTAAGAA+GGG 0.580162 tig0023172:+19601 Msa1405770:CDS
AAATATCCATCAAATGGAGG+AGG 0.584326 tig0023172:+19751 Msa1405770:CDS
AATGGAGGAGGAAGAAGAGG+AGG 0.611502 tig0023172:+19763 Msa1405770:CDS
TTGAAATATCCATCAAATGG+AGG 0.614695 tig0023172:+19748 Msa1405770:CDS
AACAGCACTGTGACATCACT+AGG 0.621698 tig0023172:+19679 Msa1405770:CDS
TGTAGATGGAGTTGTTGCTG+AGG 0.669064 tig0023172:-19545 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TCATTGAAATATCCATCAAA+TGG + tig0023172:19745-19764 Msa1405770:CDS 25.0%
!! AAATCAAGGAGTACTAAGAA+GGG + tig0023172:19601-19620 Msa1405770:CDS 30.0%
AACAATGTGAAGTTTATCAC+AGG + tig0023172:19625-19644 Msa1405770:CDS 30.0%
TTGAAATATCCATCAAATGG+AGG + tig0023172:19748-19767 Msa1405770:CDS 30.0%
CAGTTATTGGTACCAAATCA+AGG + tig0023172:19587-19606 Msa1405770:CDS 35.0%
CTTCTTAGTACTCCTTGATT+TGG - tig0023172:19602-19621 None:intergenic 35.0%
!! CAAATCAAGGAGTACTAAGA+AGG + tig0023172:19600-19619 Msa1405770:CDS 35.0%
ACAGGATTGAACTCTTTCAA+TGG + tig0023172:19643-19662 Msa1405770:CDS 35.0%
! AAAGCTTGTTCAGTGCATAT+AGG - tig0023172:19709-19728 None:intergenic 35.0%
AAATATCCATCAAATGGAGG+AGG + tig0023172:19751-19770 Msa1405770:CDS 35.0%
CAGATTGCAGCTATTATGAA+TGG + tig0023172:19826-19845 Msa1405770:CDS 35.0%
! ATGAATGGACTTACTCTTGT+TGG + tig0023172:19841-19860 Msa1405770:CDS 35.0%
CCTACAACAGTGATTGTAGA+TGG - tig0023172:19562-19581 None:intergenic 40.0%
CCATCTACAATCACTGTTGT+AGG + tig0023172:19559-19578 Msa1405770:CDS 40.0%
GTTGTAGGAAGCTCAGTTAT+TGG + tig0023172:19574-19593 Msa1405770:CDS 40.0%
TCATCAAGATGTAATGCTGC+AGG + tig0023172:19793-19812 Msa1405770:CDS 40.0%
TGTAGATGGAGTTGTTGCTG+AGG - tig0023172:19548-19567 None:intergenic 45.0%
AACAGCACTGTGACATCACT+AGG + tig0023172:19679-19698 Msa1405770:CDS 45.0%
CTTCTTCCTCCTCCATTTGA+TGG - tig0023172:19760-19779 None:intergenic 45.0%
TCAAATGGAGGAGGAAGAAG+AGG + tig0023172:19760-19779 Msa1405770:CDS 45.0%
!! ACTCTTGTTGGTGTTGCTGT+TGG + tig0023172:19853-19872 Msa1405770:CDS 45.0%
AATGGAGGAGGAAGAAGAGG+AGG + tig0023172:19763-19782 Msa1405770:CDS 50.0%
! GGAGGAAGAAGAGGAGGTGC+AGG + tig0023172:19769-19788 Msa1405770:CDS 60.0%
Chromosome Type Strat End Strand Name
tig0023172 gene 19535 19921 19535 ID=Msa1405770;Name=Msa1405770
tig0023172 mRNA 19535 19921 19535 ID=Msa1405770-mRNA-1;Parent=Msa1405770;Name=Msa1405770-mRNA-1;_AED=0.32;_eAED=0.33;_QI=0|-1|0|1|-1|1|1|0|128
tig0023172 exon 19535 19921 19535 ID=Msa1405770-mRNA-1:exon:24265;Parent=Msa1405770-mRNA-1
tig0023172 CDS 19535 19921 19535 ID=Msa1405770-mRNA-1:cds;Parent=Msa1405770-mRNA-1
Gene Sequence

>Msa1405770

ATGGCTACAGCCTCAGCAACAACTCCATCTACAATCACTGTTGTAGGAAGCTCAGTTATTGGTACCAAATCAAGGAGTACTAAGAAGGGTAACAATGTGAAGTTTATCACAGGATTGAACTCTTTCAATGGATTGAAAGCACAGAACAGCACTGTGACATCACTAGGAGTTCCTATATGCACTGAACAAGCTTTTGCAAAAGTGATGAGTTCATTGAAATATCCATCAAATGGAGGAGGAAGAAGAGGAGGTGCAGGTTCATCAAGATGTAATGCTGCAGGTGAGATTTTTCAGATTGCAGCTATTATGAATGGACTTACTCTTGTTGGTGTTGCTGTTGGATTTGTTCTTCTTCGAATTGAAGCAGCTGTTGAAGAAGCTGAGTAA

Protein sequence

>Msa1405770

MATASATTPSTITVVGSSVIGTKSRSTKKGNNVKFITGLNSFNGLKAQNSTVTSLGVPICTEQAFAKVMSSLKYPSNGGGRRGGAGSSRCNAAGEIFQIAAIMNGLTLVGVAVGFVLLRIEAAVEEAE*