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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0178640 | XP_003592540.2 | 48.529 | 68 | 13 | 1 | 2 | 47 | 251 | 318 | 7.63e-11 | 67.0 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0178640 | G7IAS0 | 48.529 | 68 | 13 | 1 | 2 | 47 | 251 | 318 | 3.64e-11 | 67.0 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0011960 | Msa0178640 | 0.805436 | 1.336025e-49 | -8.615850e-47 |
| Msa0032580 | Msa0178640 | 0.817825 | 2.697146e-52 | -8.615850e-47 |
| Msa0040690 | Msa0178640 | 0.809586 | 1.758827e-50 | -8.615850e-47 |
| Msa0089660 | Msa0178640 | 0.821893 | 3.168900e-53 | -8.615850e-47 |
| Msa0127050 | Msa0178640 | 0.802617 | 5.152682e-49 | -8.615850e-47 |
| Msa0150820 | Msa0178640 | 0.802609 | 5.173213e-49 | -8.615850e-47 |
| Msa0160550 | Msa0178640 | 0.827718 | 1.340208e-54 | -8.615850e-47 |
| Msa0172970 | Msa0178640 | 0.804645 | 1.955548e-49 | -8.615850e-47 |
| Msa0178590 | Msa0178640 | 0.964187 | 5.185631e-123 | -8.615850e-47 |
| Msa0178640 | Msa0184780 | 0.805423 | 1.344420e-49 | -8.615850e-47 |
| Msa0178640 | Msa0187120 | 0.803247 | 3.818196e-49 | -8.615850e-47 |
| Msa0178640 | Msa0220720 | 0.821223 | 4.525304e-53 | -8.615850e-47 |
| Msa0178640 | Msa0222890 | 0.816589 | 5.115009e-52 | -8.615850e-47 |
| Msa0178640 | Msa0228070 | 0.803660 | 3.135979e-49 | -8.615850e-47 |
| Msa0178640 | Msa0260680 | 0.802343 | 5.869457e-49 | -8.615850e-47 |
| Msa0178640 | Msa0264150 | 0.812351 | 4.429673e-51 | -8.615850e-47 |
| Msa0178640 | Msa0280090 | 0.826888 | 2.118069e-54 | -8.615850e-47 |
| Msa0178640 | Msa0289250 | 0.816965 | 4.211732e-52 | -8.615850e-47 |
| Msa0178640 | Msa0299870 | 0.812788 | 3.555069e-51 | -8.615850e-47 |
| Msa0178640 | Msa0309770 | 0.805176 | 1.514661e-49 | -8.615850e-47 |
| Msa0178640 | Msa0336420 | 0.801618 | 8.271473e-49 | -8.615850e-47 |
| Msa0178640 | Msa0337240 | 0.818473 | 1.924934e-52 | -8.615850e-47 |
| Msa0178640 | Msa0341030 | 0.824673 | 7.105852e-54 | -8.615850e-47 |
| Msa0178640 | Msa0385580 | 0.815991 | 6.958862e-52 | -8.615850e-47 |
| Msa0178640 | Msa0487800 | 0.805429 | 1.340784e-49 | -8.615850e-47 |
| Msa0178640 | Msa0529890 | 0.802901 | 4.501401e-49 | -8.615850e-47 |
| Msa0178640 | Msa0547320 | 0.806489 | 8.023863e-50 | -8.615850e-47 |
| Msa0178640 | Msa0592440 | 0.824584 | 7.455780e-54 | -8.615850e-47 |
| Msa0178640 | Msa0610430 | 0.831982 | 1.225902e-55 | -8.615850e-47 |
| Msa0178640 | Msa0617640 | 0.800736 | 1.252790e-48 | -8.615850e-47 |
| Msa0178640 | Msa0643560 | 0.810018 | 1.420217e-50 | -8.615850e-47 |
| Msa0178640 | Msa0661190 | -0.802141 | 6.457998e-49 | -8.615850e-47 |
| Msa0178640 | Msa0663390 | 0.805764 | 1.140410e-49 | -8.615850e-47 |
| Msa0178640 | Msa0682840 | 0.809702 | 1.660612e-50 | -8.615850e-47 |
| Msa0178640 | Msa0689260 | 0.809168 | 2.162089e-50 | -8.615850e-47 |
| Msa0178640 | Msa0715700 | 0.814696 | 1.350686e-51 | -8.615850e-47 |
| Msa0178640 | Msa0716840 | 0.833830 | 4.257054e-56 | -8.615850e-47 |
| Msa0178640 | Msa0743720 | 0.803793 | 2.942558e-49 | -8.615850e-47 |
| Msa0178640 | Msa0743950 | 0.806471 | 8.094949e-50 | -8.615850e-47 |
| Msa0178640 | Msa0769920 | 0.800897 | 1.161886e-48 | -8.615850e-47 |
| Msa0178640 | Msa0790660 | -0.830949 | 2.201699e-55 | -8.615850e-47 |
| Msa0178640 | Msa0790850 | 0.801461 | 8.907745e-49 | -8.615850e-47 |
| Msa0178640 | Msa0793800 | 0.825410 | 4.759214e-54 | -8.615850e-47 |
| Msa0178640 | Msa0808270 | 0.823067 | 1.690867e-53 | -8.615850e-47 |
| Msa0178640 | Msa0864250 | 0.801428 | 9.045116e-49 | -8.615850e-47 |
| Msa0178640 | Msa0959360 | 0.830325 | 3.129240e-55 | -8.615850e-47 |
| Msa0178640 | Msa0965490 | 0.814565 | 1.444338e-51 | -8.615850e-47 |
| Msa0178640 | Msa1040400 | 0.810416 | 1.165465e-50 | -8.615850e-47 |
| Msa0178640 | Msa1051200 | 0.819820 | 9.500102e-53 | -8.615850e-47 |
| Msa0178640 | Msa1087710 | 0.826583 | 2.505787e-54 | -8.615850e-47 |
| Msa0178640 | Msa1137700 | 0.804344 | 2.259700e-49 | -8.615850e-47 |
| Msa0178640 | Msa1147900 | 0.810937 | 8.991527e-51 | -8.615850e-47 |
| Msa0178640 | Msa1259490 | -0.801561 | 8.495884e-49 | -8.615850e-47 |
| Msa0178640 | Msa1302850 | 0.808941 | 2.418378e-50 | -8.615850e-47 |
| Msa0178640 | Msa1332040 | -0.803580 | 3.257391e-49 | -8.615850e-47 |
| Msa0178640 | Msa1358250 | 0.809139 | 2.193457e-50 | -8.615850e-47 |
| Msa0178640 | Msa1392780 | 0.809869 | 1.528924e-50 | -8.615850e-47 |
| Msa0178640 | Msa1394290 | 0.802733 | 4.875922e-49 | -8.615850e-47 |
| Msa0178640 | Msa1410100 | 0.827470 | 1.537120e-54 | -8.615850e-47 |
| Msa0178640 | Msa1426030 | 0.803300 | 3.722371e-49 | -8.615850e-47 |
| Msa0178640 | Msa1444310 | 0.801183 | 1.015539e-48 | -8.615850e-47 |
| Msa0178640 | Msa1457920 | 0.809547 | 1.792928e-50 | -8.615850e-47 |
| Msa0178640 | Msa1466540 | 0.832707 | 8.104917e-56 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0178640 | MtrunA17_Chr1g0208371 | 48.529 | 68 | 13 | 1 | 2 | 47 | 251 | 318 | 7.02e-15 | 67.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 14 sgRNAs with CRISPR-Local
Find 17 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATATATTGTACTTTGATTAC+TGG | 0.275088 | 1_4:-65978603 | Msa0178640:CDS |
| TGAGCCTGACGCGGTTACTA+TGG | 0.420376 | 1_4:-65978722 | Msa0178640:intron |
| TGTACTTTGATTACTGGTCT+TGG | 0.428132 | 1_4:-65978597 | Msa0178640:CDS |
| TGTAGGGAGATGAAGGATGA+TGG | 0.433447 | 1_4:-65978748 | Msa0178640:intron |
| TTGATTACTGGTCTTGGTAA+TGG | 0.438096 | 1_4:-65978591 | Msa0178640:CDS |
| TGAAGTTTGTAGGGAGATGA+AGG | 0.454618 | 1_4:-65978755 | Msa0178640:intron |
| TATACCATAGTAACCGCGTC+AGG | 0.499602 | 1_4:+65978718 | None:intergenic |
| TTTATCATGAGATACAATCA+AGG | 0.522069 | 1_4:-65978647 | Msa0178640:intron |
| GCTATGCAAAATGAAGAAGA+AGG | 0.531029 | 1_4:-65978552 | Msa0178640:CDS |
| CTATGCAAAATGAAGAAGAA+GGG | 0.588304 | 1_4:-65978551 | Msa0178640:CDS |
| AAATGAAGAAGAAGGGGCAA+AGG | 0.592568 | 1_4:-65978544 | Msa0178640:CDS |
| GTACAATATATATGAAGACT+AGG | 0.609451 | 1_4:+65978615 | None:intergenic |
| TCTTGGTAATGGTAGTCGAA+TGG | 0.610381 | 1_4:-65978580 | Msa0178640:CDS |
| TATGCAAAATGAAGAAGAAG+GGG | 0.633838 | 1_4:-65978550 | Msa0178640:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATATATTGTACTTTGATTAC+TGG | - | chr1_4:65978656-65978675 | Msa0178640:intron | 20.0% |
| ! | AATCATCAATGCATATTGTA+TGG | - | chr1_4:65978563-65978582 | Msa0178640:CDS | 25.0% |
| ! | TTTATCATGAGATACAATCA+AGG | - | chr1_4:65978612-65978631 | Msa0178640:CDS | 25.0% |
| ! | GTACAATATATATGAAGACT+AGG | + | chr1_4:65978647-65978666 | None:intergenic | 25.0% |
| CTATGCAAAATGAAGAAGAA+GGG | - | chr1_4:65978708-65978727 | Msa0178640:intron | 30.0% | |
| TATGCAAAATGAAGAAGAAG+GGG | - | chr1_4:65978709-65978728 | Msa0178640:intron | 30.0% | |
| ! | TGTACTTTGATTACTGGTCT+TGG | - | chr1_4:65978662-65978681 | Msa0178640:intron | 35.0% |
| !! | TTGATTACTGGTCTTGGTAA+TGG | - | chr1_4:65978668-65978687 | Msa0178640:intron | 35.0% |
| GCTATGCAAAATGAAGAAGA+AGG | - | chr1_4:65978707-65978726 | Msa0178640:intron | 35.0% | |
| !!! | GCGTTCTCTCTTACATTTTT+TGG | - | chr1_4:65978746-65978765 | Msa0178640:CDS | 35.0% |
| TGAAGTTTGTAGGGAGATGA+AGG | - | chr1_4:65978504-65978523 | Msa0178640:CDS | 40.0% | |
| !! | TCTTGGTAATGGTAGTCGAA+TGG | - | chr1_4:65978679-65978698 | Msa0178640:intron | 40.0% |
| AAATGAAGAAGAAGGGGCAA+AGG | - | chr1_4:65978715-65978734 | Msa0178640:intron | 40.0% | |
| TGTAGGGAGATGAAGGATGA+TGG | - | chr1_4:65978511-65978530 | Msa0178640:CDS | 45.0% | |
| TATACCATAGTAACCGCGTC+AGG | + | chr1_4:65978544-65978563 | None:intergenic | 45.0% | |
| !!! | TGATGGTTTTGAGCCTGACG+CGG | - | chr1_4:65978528-65978547 | Msa0178640:CDS | 50.0% |
| TGAGCCTGACGCGGTTACTA+TGG | - | chr1_4:65978537-65978556 | Msa0178640:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_4 | gene | 65978503 | 65978778 | 65978503 | ID=Msa0178640;Name=Msa0178640 |
| chr1_4 | mRNA | 65978503 | 65978778 | 65978503 | ID=Msa0178640-mRNA-1;Parent=Msa0178640;Name=Msa0178640-mRNA-1;_AED=0.62;_eAED=0.66;_QI=0|0|0|1|0|0|3|0|67 |
| chr1_4 | exon | 65978774 | 65978778 | 65978774 | ID=Msa0178640-mRNA-1:exon:21531;Parent=Msa0178640-mRNA-1 |
| chr1_4 | exon | 65978723 | 65978765 | 65978723 | ID=Msa0178640-mRNA-1:exon:21530;Parent=Msa0178640-mRNA-1 |
| chr1_4 | exon | 65978503 | 65978658 | 65978503 | ID=Msa0178640-mRNA-1:exon:21529;Parent=Msa0178640-mRNA-1 |
| chr1_4 | CDS | 65978774 | 65978778 | 65978774 | ID=Msa0178640-mRNA-1:cds;Parent=Msa0178640-mRNA-1 |
| chr1_4 | CDS | 65978723 | 65978765 | 65978723 | ID=Msa0178640-mRNA-1:cds;Parent=Msa0178640-mRNA-1 |
| chr1_4 | CDS | 65978503 | 65978658 | 65978503 | ID=Msa0178640-mRNA-1:cds;Parent=Msa0178640-mRNA-1 |
| Gene Sequence |
| Protein sequence |
