AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0974070


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0974070 MtrunA17_Chr1g0155331 94.737 76 4 0 3 78 169 244 4.12e-49 154
Msa0974070 MtrunA17_Chr2g0298841 94.737 76 4 0 3 78 169 244 5.07e-49 154
Msa0974070 MtrunA17_Chr4g0002321 86.842 76 10 0 3 78 168 243 5.25e-45 144
Msa0974070 MtrunA17_Chr1g0155311 96.721 61 2 0 8 68 2 62 2.16e-39 124
Msa0974070 MtrunA17_Chr7g0237701 55.556 72 32 0 7 78 175 246 1.09e-25 94.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0974070 AT2G01250.1 85.526 76 11 0 3 78 167 242 7.29e-45 144
Msa0974070 AT2G44120.1 82.895 76 13 0 3 78 167 242 1.04e-44 144
Msa0974070 AT2G44120.2 82.895 76 13 0 3 78 172 247 1.12e-44 144
Msa0974070 AT3G13580.5 84.211 76 12 0 3 78 169 244 1.16e-44 144
Msa0974070 AT3G13580.4 84.211 76 12 0 3 78 169 244 1.16e-44 144
Msa0974070 AT3G13580.2 84.211 76 12 0 3 78 169 244 1.16e-44 144
Msa0974070 AT3G13580.3 84.211 76 12 0 3 78 169 244 1.16e-44 144
Msa0974070 AT3G13580.1 84.211 76 12 0 3 78 169 244 1.16e-44 144
Msa0974070 AT3G13580.7 84.211 76 12 0 3 78 169 244 1.16e-44 144
Msa0974070 AT3G13580.8 84.211 76 12 0 3 78 169 244 1.16e-44 144
Msa0974070 AT3G13580.6 84.211 76 12 0 3 78 169 244 1.16e-44 144
Msa0974070 AT3G13580.9 84.211 76 12 0 3 78 169 244 1.16e-44 144
Msa0974070 AT1G80750.1 53.425 73 33 1 7 78 175 247 4.51e-20 80.5

Find 24 sgRNAs with CRISPR-Local

Find 39 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTCATTAGAAGGATGAATT+AGG 0.270598 6_4:-6935516 None:intergenic
TTTCAAGCTCAAAGCTCCTT+TGG 0.284641 6_4:-6935612 Msa0974070:CDS
AGTGTTCAATTGCAGGTTCT+TGG 0.318308 6_4:-6935725 Msa0974070:CDS
TTCAAGCTCAAAGCTCCTTT+GGG 0.329811 6_4:-6935611 Msa0974070:CDS
GTGTTCAATTGCAGGTTCTT+GGG 0.397884 6_4:-6935724 Msa0974070:CDS
CTGACACAGTGTTCAATTGC+AGG 0.400346 6_4:-6935732 Msa0974070:intron
AAGGTGGTGATGCTGGTAAC+AGG 0.401808 6_4:-6935556 Msa0974070:CDS
ACATCAATGAACTCATTAGA+AGG 0.462677 6_4:-6935526 Msa0974070:CDS
AAGAGAAATCACTATGTTGA+AGG 0.489111 6_4:-6935575 Msa0974070:CDS
AAAGGAGCTTTGAGCTTGAA+AGG 0.504831 6_4:+6935614 None:intergenic
GAGAGGCAAACAACTTCCTA+TGG 0.504947 6_4:-6935637 Msa0974070:CDS
TATGTTGAAGGTGGTGATGC+TGG 0.533299 6_4:-6935563 Msa0974070:CDS
TGAAGTGAGATCCAACAGTC+AGG 0.533373 6_4:+6935660 None:intergenic
ATCCACGAGATCCTGACTGT+TGG 0.544264 6_4:-6935671 Msa0974070:CDS
TTGCAGGTTCTTGGGAAACA+TGG 0.547799 6_4:-6935716 Msa0974070:CDS
TTCTTCTTCATGCCACCCAA+AGG 0.554983 6_4:+6935596 None:intergenic
CTTTGAGCTTGAAAGGCCAT+AGG 0.568033 6_4:+6935621 None:intergenic
AAGCTCAAAGCTCCTTTGGG+TGG 0.570830 6_4:-6935608 Msa0974070:CDS
ATCCAACAGTCAGGATCTCG+TGG 0.575620 6_4:+6935669 None:intergenic
CTACTAGCGCGGTTATGGAA+AGG 0.591790 6_4:-6936069 None:intergenic
AGAAATCACTATGTTGAAGG+TGG 0.637998 6_4:-6935572 Msa0974070:CDS
AGGTGGTGATGCTGGTAACA+GGG 0.651466 6_4:-6935555 Msa0974070:CDS
TGTTGGATCTCACTTCAGAG+AGG 0.724978 6_4:-6935654 Msa0974070:CDS
TGGTGATGCTGGTAACAGGG+AGG 0.745630 6_4:-6935552 Msa0974070:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GAAAAATAGAAAAATTTAAC+CGG + chr6_4:6935818-6935837 None:intergenic 15.0%
!! GGTGCTATTATTATTGTTGA+AGG - chr6_4:6935784-6935803 Msa0974070:intron 30.0%
AAGAGAAATCACTATGTTGA+AGG - chr6_4:6935997-6936016 Msa0974070:intron 30.0%
ACATCAATGAACTCATTAGA+AGG - chr6_4:6936046-6936065 Msa0974070:intron 30.0%
TGTGTGATCAAATGAAAGCA+GGG + chr6_4:6935596-6935615 None:intergenic 35.0%
TCTGAACTGTATGACATAGA+TGG - chr6_4:6935624-6935643 Msa0974070:CDS 35.0%
CTGAACTGTATGACATAGAT+GGG - chr6_4:6935625-6935644 Msa0974070:CDS 35.0%
AATTGGGTAAAGTACAGAGT+CGG + chr6_4:6935664-6935683 None:intergenic 35.0%
CATTCTGACTTTGGCAAATT+GGG + chr6_4:6935680-6935699 None:intergenic 35.0%
ACATTCTGACTTTGGCAAAT+TGG + chr6_4:6935681-6935700 None:intergenic 35.0%
AACAACTCACATTCTGACTT+TGG + chr6_4:6935689-6935708 None:intergenic 35.0%
AATAATAGCACCACCATACA+GGG + chr6_4:6935776-6935795 None:intergenic 35.0%
TAATAATAGCACCACCATAC+AGG + chr6_4:6935777-6935796 None:intergenic 35.0%
ATTGTTGAAGGTTATGTTGC+CGG - chr6_4:6935796-6935815 Msa0974070:intron 35.0%
AGAAATCACTATGTTGAAGG+TGG - chr6_4:6936000-6936019 Msa0974070:intron 35.0%
CTGTGTGATCAAATGAAAGC+AGG + chr6_4:6935597-6935616 None:intergenic 40.0%
ATAATAGCACCACCATACAG+GGG + chr6_4:6935775-6935794 None:intergenic 40.0%
AGTGTTCAATTGCAGGTTCT+TGG - chr6_4:6935847-6935866 Msa0974070:intron 40.0%
GTGTTCAATTGCAGGTTCTT+GGG - chr6_4:6935848-6935867 Msa0974070:intron 40.0%
!! AAAGGAGCTTTGAGCTTGAA+AGG + chr6_4:6935961-6935980 None:intergenic 40.0%
TTTCAAGCTCAAAGCTCCTT+TGG - chr6_4:6935960-6935979 Msa0974070:intron 40.0%
TTCAAGCTCAAAGCTCCTTT+GGG - chr6_4:6935961-6935980 Msa0974070:intron 40.0%
CTGACACAGTGTTCAATTGC+AGG - chr6_4:6935840-6935859 Msa0974070:intron 45.0%
TTGCAGGTTCTTGGGAAACA+TGG - chr6_4:6935856-6935875 Msa0974070:intron 45.0%
TGAAGTGAGATCCAACAGTC+AGG + chr6_4:6935915-6935934 None:intergenic 45.0%
TGTTGGATCTCACTTCAGAG+AGG - chr6_4:6935918-6935937 Msa0974070:intron 45.0%
GAGAGGCAAACAACTTCCTA+TGG - chr6_4:6935935-6935954 Msa0974070:intron 45.0%
CTTTGAGCTTGAAAGGCCAT+AGG + chr6_4:6935954-6935973 None:intergenic 45.0%
TTCTTCTTCATGCCACCCAA+AGG + chr6_4:6935979-6935998 None:intergenic 45.0%
! TATGTTGAAGGTGGTGATGC+TGG - chr6_4:6936009-6936028 Msa0974070:intron 45.0%
CTTGACCAATGTCCCCTGTA+TGG - chr6_4:6935760-6935779 Msa0974070:intron 50.0%
ATCCACGAGATCCTGACTGT+TGG - chr6_4:6935901-6935920 Msa0974070:intron 50.0%
ATCCAACAGTCAGGATCTCG+TGG + chr6_4:6935906-6935925 None:intergenic 50.0%
AAGCTCAAAGCTCCTTTGGG+TGG - chr6_4:6935964-6935983 Msa0974070:intron 50.0%
! AAGGTGGTGATGCTGGTAAC+AGG - chr6_4:6936016-6936035 Msa0974070:intron 50.0%
! AGGTGGTGATGCTGGTAACA+GGG - chr6_4:6936017-6936036 Msa0974070:intron 50.0%
GACCAATGTCCCCTGTATGG+TGG - chr6_4:6935763-6935782 Msa0974070:intron 55.0%
CACCACCATACAGGGGACAT+TGG + chr6_4:6935768-6935787 None:intergenic 55.0%
! TGGTGATGCTGGTAACAGGG+AGG - chr6_4:6936020-6936039 Msa0974070:intron 55.0%
Chromosome Type Strat End Strand Name
chr6_4 gene 6935517 6936077 6935517 ID=Msa0974070;Name=Msa0974070
chr6_4 mRNA 6935517 6936077 6935517 ID=Msa0974070-mRNA-1;Parent=Msa0974070;Name=Msa0974070-mRNA-1;_AED=0.39;_eAED=0.41;_QI=0|0|0|1|0|0.5|2|0|78
chr6_4 exon 6936070 6936077 6936070 ID=Msa0974070-mRNA-1:exon:2786;Parent=Msa0974070-mRNA-1
chr6_4 exon 6935517 6935745 6935517 ID=Msa0974070-mRNA-1:exon:2785;Parent=Msa0974070-mRNA-1
chr6_4 CDS 6936070 6936077 6936070 ID=Msa0974070-mRNA-1:cds;Parent=Msa0974070-mRNA-1
chr6_4 CDS 6935517 6935745 6935517 ID=Msa0974070-mRNA-1:cds;Parent=Msa0974070-mRNA-1
Gene Sequence

>Msa0974070

ATGGAAAGTGTTCAATTGCAGGTTCTTGGGAAACATGGTATCATTTGCATTGAAGATCTCATCCACGAGATCCTGACTGTTGGATCTCACTTCAGAGAGGCAAACAACTTCCTATGGCCTTTCAAGCTCAAAGCTCCTTTGGGTGGCATGAAGAAGAAGAGAAATCACTATGTTGAAGGTGGTGATGCTGGTAACAGGGAGGATTACATCAATGAACTCATTAGAAGGATGAATTAG

Protein sequence

>Msa0974070

MESVQLQVLGKHGIICIEDLIHEILTVGSHFREANNFLWPFKLKAPLGGMKKKRNHYVEGGDAGNREDYINELIRRMN*