AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1448990


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1448990 MtrunA17_Chr7g0275981 93.913 230 9 1 1 230 1 225 3.82e-155 429
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1448990 AT4G00895.1 40.945 127 61 3 65 187 75 191 3.27e-19 82.4
Msa1448990 AT4G09650.1 29.333 150 99 3 87 230 52 200 5.44e-14 69.3

Find 55 sgRNAs with CRISPR-Local

Find 65 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGGAAGAGAAATGAGATTT+TGG 0.211304 tig0032353:+31846 None:intergenic
ACTGAGTTTCTGCACACTTT+TGG 0.309140 tig0032353:+31362 None:intergenic
TCAGTGGTGCAGTGAGGGTT+AGG 0.341774 tig0032353:-31344 Msa1448990:CDS
ATGTGGAACTCAAGTTGTTT+TGG 0.349249 tig0032353:-31430 Msa1448990:CDS
ATGGTTTGTGTTTGAGAGGT+TGG 0.358792 tig0032353:+31757 None:intergenic
ATTGGTGAAGATGAAATGTT+TGG 0.381129 tig0032353:-31390 Msa1448990:CDS
TGGTTTGTGTTTGAGAGGTT+GGG 0.403119 tig0032353:+31758 None:intergenic
TTTGAGAGGTTGGGTCTTTG+AGG 0.403625 tig0032353:+31767 None:intergenic
GCAGCAGCATAGCCAGTAGC+AGG 0.415721 tig0032353:+31708 None:intergenic
TGAAGGGCATGTGGTTGGTT+TGG 0.422427 tig0032353:-31532 Msa1448990:CDS
TGTTGGTGTTGACCCTTCAT+TGG 0.430284 tig0032353:-31583 Msa1448990:CDS
TTGAGAGGTTGGGTCTTTGA+GGG 0.430753 tig0032353:+31768 None:intergenic
ACCACCTTCCTCACCAATGA+AGG 0.445507 tig0032353:+31570 None:intergenic
TTGTGAAGTGATAGAATTCA+CGG 0.447151 tig0032353:+31910 None:intergenic
CACCCTTCCCTCGGTTCAAA+GGG 0.453751 tig0032353:-31658 Msa1448990:CDS
TTCCATCACAAGCCTGCTAC+TGG 0.468777 tig0032353:-31720 Msa1448990:CDS
TTGGTTGTTGAGGATGAGAA+GGG 0.471694 tig0032353:+31865 None:intergenic
TTTGGTTGTTGAGGATGAGA+AGG 0.473648 tig0032353:+31864 None:intergenic
ACACCCTTCCCTCGGTTCAA+AGG 0.483662 tig0032353:-31659 Msa1448990:CDS
TAGAATTCACGGTTGGTTGT+TGG 0.484183 tig0032353:+31921 None:intergenic
TTGGTGAAGATGAAATGTTT+GGG 0.494512 tig0032353:-31389 Msa1448990:CDS
CAGTGGTGCAGTGAGGGTTA+GGG 0.506987 tig0032353:-31343 Msa1448990:CDS
TTGAACCGAGGGAAGGGTGT+TGG 0.514330 tig0032353:+31662 None:intergenic
TGGGTCTTTGAGGGTAGTGA+AGG 0.516568 tig0032353:+31777 None:intergenic
AATTCACGGTTGGTTGTTGG+TGG 0.518266 tig0032353:+31924 None:intergenic
AGCCAGTAGCAGGCTTGTGA+TGG 0.522904 tig0032353:+31718 None:intergenic
AGGATTTATGATGAATTATG+TGG 0.523605 tig0032353:-31447 Msa1448990:CDS
GAAGATGGTTTGTGTTTGAG+AGG 0.530277 tig0032353:+31753 None:intergenic
TGGAATACTTGAGAAGAAGA+TGG 0.533703 tig0032353:+31738 None:intergenic
AAATTTGAAGGGCATGTGGT+TGG 0.536206 tig0032353:-31537 Msa1448990:CDS
AAGTGTTGGAAGAGTTCATG+AGG 0.536714 tig0032353:-31467 Msa1448990:CDS
TGACCCTTCATTGGTGAGGA+AGG 0.538931 tig0032353:-31574 Msa1448990:CDS
GTGGAGCAGAGAAAATTTGA+AGG 0.540648 tig0032353:-31549 Msa1448990:CDS
GGGAATTGTTGAGGAAGTGT+TGG 0.544791 tig0032353:-31481 Msa1448990:CDS
ATCCCTTTGAACCGAGGGAA+GGG 0.545984 tig0032353:+31656 None:intergenic
GCTGATGAAGAAGAACAAGC+TGG 0.546081 tig0032353:-31502 Msa1448990:CDS
AAATTTCAATCAGTTGATGT+TGG 0.559351 tig0032353:-31600 Msa1448990:CDS
GAAACTCAGTGGTGCAGTGA+GGG 0.562635 tig0032353:-31349 Msa1448990:CDS
AGAGCTTGAGAAAGCATCCA+TGG 0.563193 tig0032353:+31965 None:intergenic
ATTCACGGTTGGTTGTTGGT+GGG 0.565174 tig0032353:+31925 None:intergenic
TTCATTGGTGAGGAAGGTGG+TGG 0.567833 tig0032353:-31568 Msa1448990:CDS
CATCCCTTTGAACCGAGGGA+AGG 0.585509 tig0032353:+31655 None:intergenic
CCCTTCATTGGTGAGGAAGG+TGG 0.586166 tig0032353:-31571 Msa1448990:CDS
CTGATGAAGAAGAACAAGCT+GGG 0.589597 tig0032353:-31501 Msa1448990:CDS
GAGAAAATTTGAAGGGCATG+TGG 0.597790 tig0032353:-31541 Msa1448990:CDS
TGAACATCCCTTTGAACCGA+GGG 0.602693 tig0032353:+31651 None:intergenic
GTGTTGACCCTTCATTGGTG+AGG 0.604863 tig0032353:-31578 Msa1448990:CDS
TTGAACATCCCTTTGAACCG+AGG 0.616637 tig0032353:+31650 None:intergenic
GAAGGGTTTGCAGTTGCATG+AGG 0.616977 tig0032353:+31882 None:intergenic
GAACAAGCTGGGAATTGTTG+AGG 0.625515 tig0032353:-31490 Msa1448990:CDS
CCACCTTCCTCACCAATGAA+GGG 0.627070 tig0032353:+31571 None:intergenic
GAAGTGATAGAATTCACGGT+TGG 0.666630 tig0032353:+31914 None:intergenic
TGGAGCAGAGAAAATTTGAA+GGG 0.672649 tig0032353:-31548 Msa1448990:CDS
AGAAACTCAGTGGTGCAGTG+AGG 0.695602 tig0032353:-31350 Msa1448990:CDS
AAAAGTGTGCAGAAACTCAG+TGG 0.740335 tig0032353:-31360 Msa1448990:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TGAGAAAGTTTTTGTTTTTT+GGG + tig0032353:31444-31463 None:intergenic 20.0%
!!! GTGAGAAAGTTTTTGTTTTT+TGG + tig0032353:31445-31464 None:intergenic 25.0%
!!! ATTGAAATTTCAGTTTTTGG+AGG + tig0032353:31646-31665 None:intergenic 25.0%
!! CTGATTGAAATTTCAGTTTT+TGG + tig0032353:31649-31668 None:intergenic 25.0%
!! AAATTTCAATCAGTTGATGT+TGG - tig0032353:31656-31675 Msa1448990:CDS 25.0%
! AGGATTTATGATGAATTATG+TGG - tig0032353:31809-31828 Msa1448990:CDS 25.0%
! GTTTCATCAAAAAGAGAAAT+TGG - tig0032353:31848-31867 Msa1448990:CDS 25.0%
TTGTGAAGTGATAGAATTCA+CGG + tig0032353:31349-31368 None:intergenic 30.0%
!!! AAATGAGATTTTGGTTGTTG+AGG + tig0032353:31404-31423 None:intergenic 30.0%
! TTGGAAGAGAAATGAGATTT+TGG + tig0032353:31413-31432 None:intergenic 30.0%
ATTGGTGAAGATGAAATGTT+TGG - tig0032353:31866-31885 Msa1448990:CDS 30.0%
TTGGTGAAGATGAAATGTTT+GGG - tig0032353:31867-31886 Msa1448990:CDS 30.0%
!!! TGTTTTTTGGGTGACTAAGT+TGG + tig0032353:31432-31451 None:intergenic 35.0%
TGGAATACTTGAGAAGAAGA+TGG + tig0032353:31521-31540 None:intergenic 35.0%
TGGAGCAGAGAAAATTTGAA+GGG - tig0032353:31708-31727 Msa1448990:CDS 35.0%
!! ATGTGGAACTCAAGTTGTTT+TGG - tig0032353:31826-31845 Msa1448990:CDS 35.0%
GAGGGTTAGGGTTAAAAATT+TGG - tig0032353:31925-31944 Msa1448990:CDS 35.0%
! TAGAATTCACGGTTGGTTGT+TGG + tig0032353:31338-31357 None:intergenic 40.0%
GAAGTGATAGAATTCACGGT+TGG + tig0032353:31345-31364 None:intergenic 40.0%
TTGGTTGTTGAGGATGAGAA+GGG + tig0032353:31394-31413 None:intergenic 40.0%
TTTGGTTGTTGAGGATGAGA+AGG + tig0032353:31395-31414 None:intergenic 40.0%
! TGGTTTGTGTTTGAGAGGTT+GGG + tig0032353:31501-31520 None:intergenic 40.0%
! ATGGTTTGTGTTTGAGAGGT+TGG + tig0032353:31502-31521 None:intergenic 40.0%
! GAAGATGGTTTGTGTTTGAG+AGG + tig0032353:31506-31525 None:intergenic 40.0%
GTGGAGCAGAGAAAATTTGA+AGG - tig0032353:31707-31726 Msa1448990:CDS 40.0%
! GAGAAAATTTGAAGGGCATG+TGG - tig0032353:31715-31734 Msa1448990:CDS 40.0%
! AAATTTGAAGGGCATGTGGT+TGG - tig0032353:31719-31738 Msa1448990:CDS 40.0%
CTGATGAAGAAGAACAAGCT+GGG - tig0032353:31755-31774 Msa1448990:CDS 40.0%
!! AAGTGTTGGAAGAGTTCATG+AGG - tig0032353:31789-31808 Msa1448990:CDS 40.0%
! ACTGAGTTTCTGCACACTTT+TGG + tig0032353:31897-31916 None:intergenic 40.0%
! AAAAGTGTGCAGAAACTCAG+TGG - tig0032353:31896-31915 Msa1448990:CDS 40.0%
!! GGTTGTTGGTGGGATTTTGA+GGG + tig0032353:31324-31343 None:intergenic 45.0%
!! TGGTTGTTGGTGGGATTTTG+AGG + tig0032353:31325-31344 None:intergenic 45.0%
! ATTCACGGTTGGTTGTTGGT+GGG + tig0032353:31334-31353 None:intergenic 45.0%
! AATTCACGGTTGGTTGTTGG+TGG + tig0032353:31335-31354 None:intergenic 45.0%
TTGAGAGGTTGGGTCTTTGA+GGG + tig0032353:31491-31510 None:intergenic 45.0%
TTTGAGAGGTTGGGTCTTTG+AGG + tig0032353:31492-31511 None:intergenic 45.0%
AAAAACCAACACCCTTCCCT+CGG - tig0032353:31589-31608 Msa1448990:CDS 45.0%
TGAACATCCCTTTGAACCGA+GGG + tig0032353:31608-31627 None:intergenic 45.0%
TTGAACATCCCTTTGAACCG+AGG + tig0032353:31609-31628 None:intergenic 45.0%
!! TGTTGGTGTTGACCCTTCAT+TGG - tig0032353:31673-31692 Msa1448990:CDS 45.0%
GCTGATGAAGAAGAACAAGC+TGG - tig0032353:31754-31773 Msa1448990:CDS 45.0%
GAACAAGCTGGGAATTGTTG+AGG - tig0032353:31766-31785 Msa1448990:CDS 45.0%
! GGGAATTGTTGAGGAAGTGT+TGG - tig0032353:31775-31794 Msa1448990:CDS 45.0%
GAAGGGTTTGCAGTTGCATG+AGG + tig0032353:31377-31396 None:intergenic 50.0%
! TGGGTCTTTGAGGGTAGTGA+AGG + tig0032353:31482-31501 None:intergenic 50.0%
TTCCATCACAAGCCTGCTAC+TGG - tig0032353:31536-31555 Msa1448990:CDS 50.0%
ATCCCTTTGAACCGAGGGAA+GGG + tig0032353:31603-31622 None:intergenic 50.0%
! GTGTTGACCCTTCATTGGTG+AGG - tig0032353:31678-31697 Msa1448990:CDS 50.0%
TGACCCTTCATTGGTGAGGA+AGG - tig0032353:31682-31701 Msa1448990:CDS 50.0%
CCACCTTCCTCACCAATGAA+GGG + tig0032353:31688-31707 None:intergenic 50.0%
ACCACCTTCCTCACCAATGA+AGG + tig0032353:31689-31708 None:intergenic 50.0%
TTCATTGGTGAGGAAGGTGG+TGG - tig0032353:31688-31707 Msa1448990:CDS 50.0%
! TGAAGGGCATGTGGTTGGTT+TGG - tig0032353:31724-31743 Msa1448990:CDS 50.0%
AGAAACTCAGTGGTGCAGTG+AGG - tig0032353:31906-31925 Msa1448990:CDS 50.0%
GAAACTCAGTGGTGCAGTGA+GGG - tig0032353:31907-31926 Msa1448990:CDS 50.0%
AGCCAGTAGCAGGCTTGTGA+TGG + tig0032353:31541-31560 None:intergenic 55.0%
! TTGAACCGAGGGAAGGGTGT+TGG + tig0032353:31597-31616 None:intergenic 55.0%
ACACCCTTCCCTCGGTTCAA+AGG - tig0032353:31597-31616 Msa1448990:CDS 55.0%
CACCCTTCCCTCGGTTCAAA+GGG - tig0032353:31598-31617 Msa1448990:CDS 55.0%
CATCCCTTTGAACCGAGGGA+AGG + tig0032353:31604-31623 None:intergenic 55.0%
CCCTTCATTGGTGAGGAAGG+TGG - tig0032353:31685-31704 Msa1448990:CDS 55.0%
TCAGTGGTGCAGTGAGGGTT+AGG - tig0032353:31912-31931 Msa1448990:CDS 55.0%
CAGTGGTGCAGTGAGGGTTA+GGG - tig0032353:31913-31932 Msa1448990:CDS 55.0%
GCAGCAGCATAGCCAGTAGC+AGG + tig0032353:31551-31570 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
tig0032353 gene 31293 31985 31293 ID=Msa1448990;Name=Msa1448990
tig0032353 mRNA 31293 31985 31293 ID=Msa1448990-mRNA-1;Parent=Msa1448990;Name=Msa1448990-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|230
tig0032353 exon 31293 31985 31293 ID=Msa1448990-mRNA-1:exon:16707;Parent=Msa1448990-mRNA-1
tig0032353 CDS 31293 31985 31293 ID=Msa1448990-mRNA-1:cds;Parent=Msa1448990-mRNA-1
Gene Sequence

>Msa1448990

ATGGATGCTTTCTCAAGCTCTGTTTCAACCCTCAAAATCCCACCAACAACCAACCGTGAATTCTATCACTTCACAAGAACTCCTCATGCAACTGCAAACCCTTCTCATCCTCAACAACCAAAATCTCATTTCTCTTCCAACTTAGTCACCCAAAAAACAAAAACTTTCTCACACAACAATCATTCTCCTTCACTACCCTCAAAGACCCAACCTCTCAAACACAAACCATCTTCTTCTCAAGTATTCCATCACAAGCCTGCTACTGGCTATGCTGCTGCAATCATAGATGTAGCTCAAAAAACCAACACCCTTCCCTCGGTTCAAAGGGATGTTCAAAGACTCTTGAAGTTCCTCCAAAAACTGAAATTTCAATCAGTTGATGTTGGTGTTGACCCTTCATTGGTGAGGAAGGTGGTGGAGCAGAGAAAATTTGAAGGGCATGTGGTTGGTTTGGTGAAGATGCTGATGAAGAAGAACAAGCTGGGAATTGTTGAGGAAGTGTTGGAAGAGTTCATGAGGATTTATGATGAATTATGTGGAACTCAAGTTGTTTTGGTTTCATCAAAAAGAGAAATTGGTGAAGATGAAATGTTTGGGATTGCCAAAAGTGTGCAGAAACTCAGTGGTGCAGTGAGGGTTAGGGTTAAAAATTTGGTTCAAGAAGAGAGTTTTCCTTCTTCTTTTGCAGTGTAA

Protein sequence

>Msa1448990

MDAFSSSVSTLKIPPTTNREFYHFTRTPHATANPSHPQQPKSHFSSNLVTQKTKTFSHNNHSPSLPSKTQPLKHKPSSSQVFHHKPATGYAAAIIDVAQKTNTLPSVQRDVQRLLKFLQKLKFQSVDVGVDPSLVRKVVEQRKFEGHVVGLVKMLMKKNKLGIVEEVLEEFMRIYDELCGTQVVLVSSKREIGEDEMFGIAKSVQKLSGAVRVRVKNLVQEESFPSSFAV*