Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0953440 | KEH15936.1 | 70.714 | 140 | 18 | 3 | 1 | 140 | 1 | 117 | 1.60e-52 | 174 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0369920 | Msa0953440 | 0.815120 | 1.087659e-51 | -8.615850e-47 |
| Msa0417330 | Msa0953440 | 0.802296 | 6.002118e-49 | -8.615850e-47 |
| Msa0275020 | Msa0953440 | 0.808006 | 3.828596e-50 | -8.615850e-47 |
| Msa0315940 | Msa0953440 | 0.808558 | 2.919808e-50 | -8.615850e-47 |
| Msa0509670 | Msa0953440 | 0.809058 | 2.282154e-50 | -8.615850e-47 |
PPI
| Gene1 | Gene2 | Type |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0953440 | MtrunA17_Chr6g0486521 | 86.316 | 95 | 12 | 1 | 46 | 140 | 1098 | 1191 | 1.32e-43 | 152 |
| Msa0953440 | MtrunA17_Chr6g0486531 | 54.286 | 105 | 32 | 2 | 52 | 140 | 448 | 552 | 4.39e-23 | 94.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 21 sgRNAs with CRISPR-Local
Find 35 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GATGAAAGTGTAACAGAAAA+TGG | 0.279945 | 6_3:-49912835 | Msa0953440:CDS |
| CAATGAGATTGATGCTAGTT+TGG | 0.365513 | 6_3:-49912540 | Msa0953440:CDS |
| GCATCAATCTCATTGCTATC+TGG | 0.367078 | 6_3:+49912548 | None:intergenic |
| ATGTGATTGTTGTTCATCTT+CGG | 0.386892 | 6_3:+49912795 | None:intergenic |
| TGTAATTTCCGTGCCGTGTC+CGG | 0.387125 | 6_3:-49912962 | Msa0953440:CDS |
| TAATGAAAAGGAAGAAGTTT+CGG | 0.417752 | 6_3:-49912767 | Msa0953440:CDS |
| CCTTTATTCACGCTTCCCTC+AGG | 0.461809 | 6_3:+49912494 | None:intergenic |
| GAGATTGATGCTAGTTTGGC+TGG | 0.466531 | 6_3:-49912536 | Msa0953440:CDS |
| CCTGAGGGAAGCGTGAATAA+AGG | 0.475385 | 6_3:-49912494 | None:intergenic |
| ATCACATATAGATAATGAAA+AGG | 0.521217 | 6_3:-49912779 | Msa0953440:CDS |
| ATCAGCCACTTCAACTGTAG+AGG | 0.544671 | 6_3:+49912855 | None:intergenic |
| CACAGACACCGGACACGGCA+CGG | 0.547944 | 6_3:+49912954 | None:intergenic |
| CTTCTGATTCTGTGATAACA+TGG | 0.550020 | 6_3:+49912707 | None:intergenic |
| CATGTTATCACAGAATCAGA+AGG | 0.561146 | 6_3:-49912706 | Msa0953440:intron |
| TCAAACCTCTACAGTTGAAG+TGG | 0.562268 | 6_3:-49912860 | Msa0953440:CDS |
| AAGTGATGATTTGTCTCCTG+AGG | 0.605174 | 6_3:-49912510 | Msa0953440:CDS |
| GATTCTGTGATAACATGGCA+AGG | 0.617854 | 6_3:+49912712 | None:intergenic |
| AGTGATGATTTGTCTCCTGA+GGG | 0.629295 | 6_3:-49912509 | Msa0953440:CDS |
| AGGTTTGAGATTTATTTCTG+CGG | 0.635544 | 6_3:+49912875 | None:intergenic |
| TGAATCACAGACACCGGACA+CGG | 0.650156 | 6_3:+49912949 | None:intergenic |
| TGTTTATGAATCACAGACAC+CGG | 0.653371 | 6_3:+49912943 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AGACTGAATTTTATGATTTA+CGG | - | chr6_3:49912609-49912628 | Msa0953440:intron | 20.0% |
| !!! | GATTCATAAACAACATTTTA+AGG | - | chr6_3:49912689-49912708 | Msa0953440:intron | 20.0% |
| !! | ATCACATATAGATAATGAAA+AGG | - | chr6_3:49912842-49912861 | Msa0953440:CDS | 20.0% |
| !! | TCACATTCATAATTTACATA+TGG | - | chr6_3:49912976-49912995 | Msa0953440:intron | 20.0% |
| !! | GACTGAATTTTATGATTTAC+GGG | - | chr6_3:49912610-49912629 | Msa0953440:intron | 25.0% |
| !! | ACTGAATTTTATGATTTACG+GGG | - | chr6_3:49912611-49912630 | Msa0953440:intron | 25.0% |
| ! | TAATGAAAAGGAAGAAGTTT+CGG | - | chr6_3:49912854-49912873 | Msa0953440:CDS | 25.0% |
| ! | AACGGAAAGGAAATATTATT+CGG | + | chr6_3:49913025-49913044 | None:intergenic | 25.0% |
| ! | AATTTTATGATTTACGGGGT+GGG | - | chr6_3:49912615-49912634 | Msa0953440:intron | 30.0% |
| !! | AGGTTTGAGATTTATTTCTG+CGG | + | chr6_3:49912749-49912768 | None:intergenic | 30.0% |
| ! | GATGAAAGTGTAACAGAAAA+TGG | - | chr6_3:49912786-49912805 | Msa0953440:CDS | 30.0% |
| ! | ATGTGATTGTTGTTCATCTT+CGG | + | chr6_3:49912829-49912848 | None:intergenic | 30.0% |
| ACATTGTCATCTACTTGAAA+CGG | + | chr6_3:49913043-49913062 | None:intergenic | 30.0% | |
| !!! | GACAACAGAGATTGTTTTTG+CGG | + | chr6_3:49912524-49912543 | None:intergenic | 35.0% |
| ! | GAATTTTATGATTTACGGGG+TGG | - | chr6_3:49912614-49912633 | Msa0953440:intron | 35.0% |
| ! | ATTTTATGATTTACGGGGTG+GGG | - | chr6_3:49912616-49912635 | Msa0953440:intron | 35.0% |
| !!! | GGGGGTTTTAAATTTGTGTT+AGG | - | chr6_3:49912635-49912654 | Msa0953440:intron | 35.0% |
| TGTTTATGAATCACAGACAC+CGG | + | chr6_3:49912681-49912700 | None:intergenic | 35.0% | |
| CTTCTGATTCTGTGATAACA+TGG | + | chr6_3:49912917-49912936 | None:intergenic | 35.0% | |
| CATGTTATCACAGAATCAGA+AGG | - | chr6_3:49912915-49912934 | Msa0953440:CDS | 35.0% | |
| CAATGAGATTGATGCTAGTT+TGG | - | chr6_3:49913081-49913100 | Msa0953440:intron | 35.0% | |
| ! | TTTTATGATTTACGGGGTGG+GGG | - | chr6_3:49912617-49912636 | Msa0953440:intron | 40.0% |
| TCAAACCTCTACAGTTGAAG+TGG | - | chr6_3:49912761-49912780 | Msa0953440:CDS | 40.0% | |
| GATTCTGTGATAACATGGCA+AGG | + | chr6_3:49912912-49912931 | None:intergenic | 40.0% | |
| GTCATCTACTTGAAACGGAA+AGG | + | chr6_3:49913038-49913057 | None:intergenic | 40.0% | |
| GCATCAATCTCATTGCTATC+TGG | + | chr6_3:49913076-49913095 | None:intergenic | 40.0% | |
| ! | AAGTGATGATTTGTCTCCTG+AGG | - | chr6_3:49913111-49913130 | Msa0953440:CDS | 40.0% |
| ! | AGTGATGATTTGTCTCCTGA+GGG | - | chr6_3:49913112-49913131 | Msa0953440:CDS | 40.0% |
| ATCTTCAGTACCTCTGCTAG+CGG | + | chr6_3:49912549-49912568 | None:intergenic | 45.0% | |
| ATCAGCCACTTCAACTGTAG+AGG | + | chr6_3:49912769-49912788 | None:intergenic | 45.0% | |
| ! | GAGATTGATGCTAGTTTGGC+TGG | - | chr6_3:49913085-49913104 | Msa0953440:intron | 45.0% |
| TGTAATTTCCGTGCCGTGTC+CGG | - | chr6_3:49912659-49912678 | Msa0953440:intron | 50.0% | |
| TGAATCACAGACACCGGACA+CGG | + | chr6_3:49912675-49912694 | None:intergenic | 50.0% | |
| CTGTTGTCAACCGCTAGCAG+AGG | - | chr6_3:49912536-49912555 | Msa0953440:CDS | 55.0% | |
| CACAGACACCGGACACGGCA+CGG | + | chr6_3:49912670-49912689 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_3 | gene | 49912496 | 49913147 | 49912496 | ID=Msa0953440;Name=Msa0953440 |
| chr6_3 | mRNA | 49912496 | 49913147 | 49912496 | ID=Msa0953440-mRNA-1;Parent=Msa0953440;Name=Msa0953440-mRNA-1;_AED=0.07;_eAED=0.07;_QI=0|0|0|1|0.5|0|3|0|140 |
| chr6_3 | exon | 49913106 | 49913147 | 49913106 | ID=Msa0953440-mRNA-1:exon:10891;Parent=Msa0953440-mRNA-1 |
| chr6_3 | exon | 49912707 | 49912986 | 49912707 | ID=Msa0953440-mRNA-1:exon:10890;Parent=Msa0953440-mRNA-1 |
| chr6_3 | exon | 49912496 | 49912593 | 49912496 | ID=Msa0953440-mRNA-1:exon:10889;Parent=Msa0953440-mRNA-1 |
| chr6_3 | CDS | 49913106 | 49913147 | 49913106 | ID=Msa0953440-mRNA-1:cds;Parent=Msa0953440-mRNA-1 |
| chr6_3 | CDS | 49912707 | 49912986 | 49912707 | ID=Msa0953440-mRNA-1:cds;Parent=Msa0953440-mRNA-1 |
| chr6_3 | CDS | 49912496 | 49912593 | 49912496 | ID=Msa0953440-mRNA-1:cds;Parent=Msa0953440-mRNA-1 |
| Gene Sequence |
| Protein sequence |
