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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0415420 | XP_003600584.1 | 60.949 | 274 | 71 | 4 | 306 | 544 | 54 | 326 | 3.09e-92 | 295 |
| Msa0415420 | XP_003600584.1 | 69.578 | 332 | 44 | 4 | 1 | 281 | 1 | 326 | 1.08e-122 | 374 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0032470 | Msa0415420 | 0.811041 | 8.538507e-51 | -8.615850e-47 |
| Msa0042550 | Msa0415420 | 0.802200 | 6.279334e-49 | -8.615850e-47 |
| Msa0081650 | Msa0415420 | 0.806941 | 6.442214e-50 | -8.615850e-47 |
| Msa0109590 | Msa0415420 | 0.816091 | 6.612813e-52 | -8.615850e-47 |
| Msa0138020 | Msa0415420 | 0.828686 | 7.832362e-55 | -8.615850e-47 |
| Msa0140100 | Msa0415420 | 0.950250 | 2.426940e-108 | -8.615850e-47 |
| Msa0205010 | Msa0415420 | 0.800877 | 1.172671e-48 | -8.615850e-47 |
| Msa0215590 | Msa0415420 | 0.809928 | 1.484475e-50 | -8.615850e-47 |
| Msa0217700 | Msa0415420 | 0.813712 | 2.228221e-51 | -8.615850e-47 |
| Msa0231060 | Msa0415420 | 0.811469 | 6.894209e-51 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0415420 | MtrunA17_Chr3g0109341 | 69.578 | 332 | 44 | 4 | 1 | 281 | 1 | 326 | 9.90e-127 | 374 |
| Msa0415420 | MtrunA17_Chr3g0109341 | 60.949 | 274 | 71 | 4 | 306 | 544 | 54 | 326 | 2.84e-96 | 295 |
| Msa0415420 | MtrunA17_Chr3g0109331 | 55.589 | 331 | 93 | 4 | 1 | 279 | 1 | 329 | 6.21e-91 | 282 |
| Msa0415420 | MtrunA17_Chr3g0109331 | 54.244 | 271 | 80 | 6 | 314 | 542 | 61 | 329 | 1.14e-76 | 245 |
| Msa0415420 | MtrunA17_Chr7g0273841 | 49.107 | 224 | 79 | 6 | 338 | 537 | 175 | 387 | 6.18e-48 | 171 |
| Msa0415420 | MtrunA17_Chr7g0273841 | 40.129 | 309 | 121 | 8 | 15 | 274 | 94 | 387 | 1.08e-44 | 162 |
| Msa0415420 | MtrunA17_Chr8g0361041 | 45.833 | 120 | 39 | 5 | 370 | 473 | 6 | 115 | 3.16e-18 | 80.5 |
| Msa0415420 | MtrunA17_Chr8g0361041 | 40.351 | 114 | 39 | 3 | 122 | 210 | 6 | 115 | 1.06e-13 | 67.8 |
| Msa0415420 | MtrunA17_Chr8g0349401 | 59.155 | 71 | 28 | 1 | 467 | 537 | 6 | 75 | 1.68e-17 | 77.4 |
| Msa0415420 | MtrunA17_Chr8g0349401 | 56.338 | 71 | 30 | 1 | 204 | 274 | 6 | 75 | 5.30e-16 | 73.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0415420 | AT1G54520.1 | 49.231 | 195 | 72 | 6 | 359 | 537 | 205 | 388 | 5.21e-41 | 152 |
| Msa0415420 | AT1G54520.1 | 37.658 | 316 | 129 | 11 | 12 | 274 | 88 | 388 | 4.00e-39 | 147 |
Find 138 sgRNAs with CRISPR-Local
Find 1502 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACTCAGTTTCAGCCTCCTC+AGG | 0.433204 | 3_2:-61621233 | Msa0415420:CDS |
| AAGGTTACAAATGATGAAGG+AGG | 0.565019 | 3_2:-61621056 | Msa0415420:CDS |
| ACAATATTGGTAGCTACTAA+AGG | 0.530785 | 3_2:-61602018 | Msa0415420:CDS |
| ACAATATTGGTAGCTACTAG+AGG | 0.643540 | 3_2:-61608919 | Msa0415420:CDS |
| ACATAAGCTACCTAACATGA+AGG | 0.574557 | 3_2:-61608893 | Msa0415420:CDS |
| ACATAAGCTACCTAACATGA+AGG | 0.574967 | 3_2:-61601992 | Msa0415420:CDS |
| ACCAACTATCAATTGAAGAA+AGG | 0.462903 | 3_2:-61603761 | Msa0415420:CDS |
| ACCAACTATCAATTGAAGAA+AGG | 0.462903 | 3_2:-61618544 | Msa0415420:CDS |
| ACTATGGACCCCACAGAGAG+AGG | 0.608037 | 3_2:-61601788 | Msa0415420:CDS |
| ACTCAGCCTTGCTGTCATTT+TGG | 0.170688 | 3_2:-61605800 | Msa0415420:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ATAAGTTGTGAATGATTCAG+AGG | + | chr3_2:61601555-61601574 | None:intergenic | 30.0% | |
| ATTCAAATTCTCCAAGTGTA+TGG | - | chr3_2:61601573-61601592 | Msa0415420:three_prime_UTR | 30.0% | |
| TTCAAATTCTCCAAGTGTAT+GGG | - | chr3_2:61601574-61601593 | Msa0415420:three_prime_UTR | 30.0% | |
| GATAAGGTTACAAATGATGA+AGG | - | chr3_2:61601647-61601666 | Msa0415420:three_prime_UTR | 30.0% | |
| TCCATAAGTATATGTCTGTT+AGG | - | chr3_2:61602191-61602210 | Msa0415420:intron | 30.0% | |
| TCCTAACAGACATATACTTA+TGG | + | chr3_2:61602195-61602214 | None:intergenic | 30.0% | |
| CCAAAACTTATTCCATAAAG+TGG | - | chr3_2:61602314-61602333 | Msa0415420:intron | 30.0% | |
| TTTGATATAGATTGTTGAGG+TGG | - | chr3_2:61602482-61602501 | Msa0415420:intron | 30.0% | |
| TTGATATAGATTGTTGAGGT+GGG | - | chr3_2:61602483-61602502 | Msa0415420:intron | 30.0% | |
| TAGGTAGAGGTAAGAAATAA+AGG | - | chr3_2:61602507-61602526 | Msa0415420:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_2 | gene | 61601395 | 61621333 | 61601395 | ID=Msa0415420;Name=Msa0415420 |
| chr3_2 | mRNA | 61601395 | 61621333 | 61601395 | ID=Msa0415420-mRNA-1;Parent=Msa0415420;Name=Msa0415420-mRNA-1;_AED=0.22;_eAED=0.22;_QI=0|0.53|0.35|1|0.38|0.35|14|271|544 |
| chr3_2 | exon | 61601395 | 61601447 | 61601395 | ID=Msa0415420-mRNA-1:exon:13056;Parent=Msa0415420-mRNA-1 |
| chr3_2 | exon | 61601499 | 61601821 | 61601499 | ID=Msa0415420-mRNA-1:exon:13055;Parent=Msa0415420-mRNA-1 |
| chr3_2 | exon | 61601927 | 61602043 | 61601927 | ID=Msa0415420-mRNA-1:exon:13054;Parent=Msa0415420-mRNA-1 |
| chr3_2 | exon | 61603047 | 61603120 | 61603047 | ID=Msa0415420-mRNA-1:exon:13053;Parent=Msa0415420-mRNA-1 |
| chr3_2 | exon | 61603709 | 61603855 | 61603709 | ID=Msa0415420-mRNA-1:exon:13052;Parent=Msa0415420-mRNA-1 |
| chr3_2 | exon | 61605503 | 61605587 | 61605503 | ID=Msa0415420-mRNA-1:exon:13051;Parent=Msa0415420-mRNA-1 |
| chr3_2 | exon | 61605744 | 61605991 | 61605744 | ID=Msa0415420-mRNA-1:exon:13050;Parent=Msa0415420-mRNA-1 |
| chr3_2 | exon | 61608616 | 61608733 | 61608616 | ID=Msa0415420-mRNA-1:exon:13049;Parent=Msa0415420-mRNA-1 |
| chr3_2 | exon | 61608828 | 61608944 | 61608828 | ID=Msa0415420-mRNA-1:exon:13048;Parent=Msa0415420-mRNA-1 |
| chr3_2 | exon | 61617830 | 61617913 | 61617830 | ID=Msa0415420-mRNA-1:exon:13047;Parent=Msa0415420-mRNA-1 |
| chr3_2 | exon | 61618520 | 61618609 | 61618520 | ID=Msa0415420-mRNA-1:exon:13046;Parent=Msa0415420-mRNA-1 |
| chr3_2 | exon | 61620773 | 61620859 | 61620773 | ID=Msa0415420-mRNA-1:exon:13045;Parent=Msa0415420-mRNA-1 |
| chr3_2 | exon | 61620956 | 61621200 | 61620956 | ID=Msa0415420-mRNA-1:exon:13044;Parent=Msa0415420-mRNA-1 |
| chr3_2 | exon | 61621216 | 61621333 | 61621216 | ID=Msa0415420-mRNA-1:exon:13043;Parent=Msa0415420-mRNA-1 |
| chr3_2 | CDS | 61621216 | 61621333 | 61621216 | ID=Msa0415420-mRNA-1:cds;Parent=Msa0415420-mRNA-1 |
| chr3_2 | CDS | 61620956 | 61621200 | 61620956 | ID=Msa0415420-mRNA-1:cds;Parent=Msa0415420-mRNA-1 |
| chr3_2 | CDS | 61620773 | 61620859 | 61620773 | ID=Msa0415420-mRNA-1:cds;Parent=Msa0415420-mRNA-1 |
| chr3_2 | CDS | 61618520 | 61618609 | 61618520 | ID=Msa0415420-mRNA-1:cds;Parent=Msa0415420-mRNA-1 |
| chr3_2 | CDS | 61617830 | 61617913 | 61617830 | ID=Msa0415420-mRNA-1:cds;Parent=Msa0415420-mRNA-1 |
| chr3_2 | CDS | 61608828 | 61608944 | 61608828 | ID=Msa0415420-mRNA-1:cds;Parent=Msa0415420-mRNA-1 |
| chr3_2 | CDS | 61608616 | 61608733 | 61608616 | ID=Msa0415420-mRNA-1:cds;Parent=Msa0415420-mRNA-1 |
| chr3_2 | CDS | 61605744 | 61605991 | 61605744 | ID=Msa0415420-mRNA-1:cds;Parent=Msa0415420-mRNA-1 |
| chr3_2 | CDS | 61605503 | 61605587 | 61605503 | ID=Msa0415420-mRNA-1:cds;Parent=Msa0415420-mRNA-1 |
| chr3_2 | CDS | 61603709 | 61603855 | 61603709 | ID=Msa0415420-mRNA-1:cds;Parent=Msa0415420-mRNA-1 |
| chr3_2 | CDS | 61603047 | 61603120 | 61603047 | ID=Msa0415420-mRNA-1:cds;Parent=Msa0415420-mRNA-1 |
| chr3_2 | CDS | 61601927 | 61602043 | 61601927 | ID=Msa0415420-mRNA-1:cds;Parent=Msa0415420-mRNA-1 |
| chr3_2 | CDS | 61601717 | 61601821 | 61601717 | ID=Msa0415420-mRNA-1:cds;Parent=Msa0415420-mRNA-1 |
| chr3_2 | three_prime_UTR | 61601499 | 61601716 | 61601499 | ID=Msa0415420-mRNA-1:three_prime_utr;Parent=Msa0415420-mRNA-1 |
| chr3_2 | three_prime_UTR | 61601395 | 61601447 | 61601395 | ID=Msa0415420-mRNA-1:three_prime_utr;Parent=Msa0415420-mRNA-1 |
| Gene Sequence |
>Msa0415420 ATGGGTTTTTCAAGAAAACACGTTACGAGTATCATTGCTTTATCACTGCTTGTGTTGTTATCATTAACATGGAACCTTAACTCAGTTTCAGCCTCCTCAGGAGGTGTTGCGGGAGGGAATTCTTCCTCATCCTCTAAATCATCCTCTGAATCATTCACAACTTATTCAAATTCTCCAAGTGTATGGGTGCAACATCATACCTATGTTACCCCTTCTAGTGATGCTGATGATGCTGATGATAAGGTTACAAATGATGAAGGAGGGGTCGTGTTTTTGTTCATTGCTGGCATAATCGGTATCATTTATTTTGTACGTCGTTGTACAGAAAACAATGATGATCCAGTTACTGTTCTCAAGCTTCAGGTTGGAATGTTGGATGAGATGGGATGTACATTACAAAGGGATCTAGCTAGGATTGCAGAAGCTGCTAATACACGGTATAAGGAAGGCGTGGATCTTAAAAGGAGCCAGGAGGGTGGAGAAAAATGCTATAACCAACTATCAATTGAAGAAAGGGAAAAATTTGATGGAGAGACATTATTTGATGTAAAAAAGAGTTCTGAAGAAACCGAGAAATTTGAAAAAGAGAAACCTCGCAGTGGGTTCGACAACAAGTACATAGTGGTAACAATATTGGTAGCTACTAGAGGAGCACATAAGCTACCTAACATGAAGGGAGCTGAAGATTTAAAGGAAGCTTTGCAAAAGCTTAAATCCCTTCTCTACTGGAGAGATCTATTAGCTGGTGAGGTATTATGGACCCCACAGAAAGAGGATGACACCCTTTCAGATGGAAAACTACTTAAAGATTACCCTCAGCTAGCCAAGTCTATGAAATGTGAAATGAATAAACAAGTGGATTCTTCTTCCTCATCCTCATCCTCAAGTTTCTTCAGTTCAGATTCTTCCTCATCCACAAGGTATTCAAGTTCTCGACATGTAAGGGCACAACATCATGGGAATGGTACCGCTGATGGTAAGGTTGCAAGTGATGAAATTGAAACATGGTTCTTGTTTTTCTTCTTGGTACTCAGCCTTGCTGTCATTTTGGCTATACGTCTTTGTAAAGAATGGGATAAGAATACAGTTACTGTGCTCAAGCTTCAGGTTGGAATCTTGGATGGGATGGGATGCACAATACAAAGGGATCTAACTAGGATTGCCGAAGCAGCTAATACATCGTCTAAGGAAGGGGTTACCCTTGATGAACATACTTTGCAGGTGGATCTTAAAAGGAGCCAGGAGGGTGGAGAAACATGCTATAACCAACTATCAATTGAAGAAAGGGAAAAATTTGATGGAGAGACATTAGTTAACTTGAGCAACAACAATAAGACACAAAAGAGTTCTGAAGAAACCGAGAAATTTGAGAAAAAGAAACTTCGCAGTGGGTTCGACAACAAGTACATAGTGGTAACAATATTGGTAGCTACTAAAGGAGCACATAAGCTACCTAACATGAAGGGTGCTGAATATTTAAAGGAAGCTTTGCAAAAACTTACATCCCTTCTCTCCAGCAAAACTTTATTAGCTGGTGAGGTACTATGGACCCCACAGAGAGAGGATGAAACCCTTTCAGATGGAAAACTACTTAAAGATTACCCTCAGCTAGCTAAGTCTATGAAATATGAATAA |
| Protein sequence |
>Msa0415420 MGFSRKHVTSIIALSLLVLLSLTWNLNSVSASSGGVAGGNSSSSSKSSSESFTTYSNSPSVWVQHHTYVTPSSDADDADDKVTNDEGGVVFLFIAGIIGIIYFVRRCTENNDDPVTVLKLQVGMLDEMGCTLQRDLARIAEAANTRYKEGVDLKRSQEGGEKCYNQLSIEEREKFDGETLFDVKKSSEETEKFEKEKPRSGFDNKYIVVTILVATRGAHKLPNMKGAEDLKEALQKLKSLLYWRDLLAGEVLWTPQKEDDTLSDGKLLKDYPQLAKSMKCEMNKQVDSSSSSSSSSFFSSDSSSSTRYSSSRHVRAQHHGNGTADGKVASDEIETWFLFFFLVLSLAVILAIRLCKEWDKNTVTVLKLQVGILDGMGCTIQRDLTRIAEAANTSSKEGVTLDEHTLQVDLKRSQEGGETCYNQLSIEEREKFDGETLVNLSNNNKTQKSSEETEKFEKKKLRSGFDNKYIVVTILVATKGAHKLPNMKGAEYLKEALQKLTSLLSSKTLLAGEVLWTPQREDETLSDGKLLKDYPQLAKSMKYE* |
