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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0975230 | XP_013468204.1 | 73.317 | 401 | 94 | 5 | 4 | 394 | 3 | 400 | 0.0 | 589 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0975230 | A0A072VKT8 | 73.317 | 401 | 94 | 5 | 4 | 394 | 3 | 400 | 0.0 | 589 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0044020 | Msa0975230 | 0.800090 | 1.696114e-48 | -8.615850e-47 |
| Msa0153420 | Msa0975230 | 0.804421 | 2.178056e-49 | -8.615850e-47 |
| Msa0235890 | Msa0975230 | 0.827771 | 1.301732e-54 | -8.615850e-47 |
| Msa0625890 | Msa0975230 | 0.800107 | 1.682911e-48 | -8.615850e-47 |
| Msa0652980 | Msa0975230 | 0.801460 | 8.911928e-49 | -8.615850e-47 |
| Msa0663680 | Msa0975230 | 0.805758 | 1.143433e-49 | -8.615850e-47 |
| Msa0706370 | Msa0975230 | 0.800996 | 1.108730e-48 | -8.615850e-47 |
| Msa0741900 | Msa0975230 | 0.813666 | 2.280436e-51 | -8.615850e-47 |
| Msa0810020 | Msa0975230 | 0.810281 | 1.245978e-50 | -8.615850e-47 |
| Msa0862100 | Msa0975230 | 0.814372 | 1.592875e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0975230 | MtrunA17_Chr1g0181301 | 73.317 | 401 | 94 | 5 | 4 | 394 | 3 | 400 | 0.0 | 589 |
| Msa0975230 | MtrunA17_Chr5g0415931 | 52.926 | 393 | 165 | 8 | 5 | 393 | 6 | 382 | 6.50e-142 | 409 |
| Msa0975230 | MtrunA17_Chr5g0415901 | 47.179 | 390 | 139 | 8 | 5 | 392 | 4 | 328 | 9.50e-116 | 340 |
| Msa0975230 | MtrunA17_Chr1g0208731 | 44.361 | 399 | 160 | 13 | 1 | 392 | 1 | 344 | 2.50e-86 | 265 |
| Msa0975230 | MtrunA17_Chr5g0437231 | 48.571 | 315 | 133 | 9 | 5 | 318 | 4 | 290 | 1.06e-82 | 254 |
| Msa0975230 | MtrunA17_Chr7g0247731 | 40.714 | 420 | 171 | 16 | 1 | 394 | 1 | 368 | 8.41e-75 | 237 |
| Msa0975230 | MtrunA17_Chr7g0247701 | 40.534 | 412 | 183 | 17 | 1 | 392 | 1 | 370 | 2.43e-74 | 236 |
| Msa0975230 | MtrunA17_Chr7g0247721 | 39.720 | 428 | 168 | 18 | 1 | 394 | 39 | 410 | 3.83e-71 | 228 |
| Msa0975230 | MtrunA17_Chr5g0437241 | 42.456 | 285 | 130 | 6 | 80 | 361 | 1 | 254 | 4.54e-62 | 200 |
| Msa0975230 | MtrunA17_Chr6g0459631 | 79.464 | 112 | 19 | 1 | 117 | 224 | 41 | 152 | 1.84e-53 | 176 |
Find 78 sgRNAs with CRISPR-Local
Find 186 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATCTATAATGTAAAAGA+TGG | 0.455567 | 6_4:-8949375 | Msa0975230:CDS |
| AAAGGGTTAGTCTATGCCGC+GGG | 0.616298 | 6_4:-8949849 | Msa0975230:CDS |
| AAGATTCGAAGTGTATAAGT+TGG | 0.476468 | 6_4:-8949601 | Msa0975230:CDS |
| AAGGGACTGGTAACTGGAAG+TGG | 0.511976 | 6_4:+8950207 | None:intergenic |
| AAGTCATGGTTGGGTAGCAA+AGG | 0.591114 | 6_4:-8950162 | Msa0975230:CDS |
| AATCATTGGAGGGAGACTTG+TGG | 0.640759 | 6_4:-8949701 | Msa0975230:CDS |
| AATGTTAAAGCTTGATAGTT+TGG | 0.243559 | 6_4:-8949547 | Msa0975230:CDS |
| AATGTTATTCCATCGTCCCG+CGG | 0.636658 | 6_4:+8949833 | None:intergenic |
| ACGGATGCCACCTTCGGTGT+GGG | 0.551054 | 6_4:-8949313 | Msa0975230:CDS |
| AGAACAAAGAGATGTTTATA+TGG | 0.371045 | 6_4:-8950251 | Msa0975230:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TTGTCAACAATCAAACTAAG+AGG | + | chr6_4:8949326-8949345 | None:intergenic | 30.0% | |
| TAATGATTCCCACAAAAAGA+AGG | - | chr6_4:8949459-8949478 | Msa0975230:CDS | 30.0% | |
| TATATATCTGGCATGTAGAT+GGG | + | chr6_4:8949674-8949693 | None:intergenic | 30.0% | |
| ATATATATCTGGCATGTAGA+TGG | + | chr6_4:8949675-8949694 | None:intergenic | 30.0% | |
| TATCAGCAAATCCAACAATT+AGG | - | chr6_4:8949738-8949757 | Msa0975230:CDS | 30.0% | |
| AAGATTCGAAGTGTATAAGT+TGG | - | chr6_4:8950135-8950154 | Msa0975230:CDS | 30.0% | |
| TAGTGATTCTGTATCTATGT+CGG | - | chr6_4:8950237-8950256 | Msa0975230:CDS | 30.0% | |
| TGCTTCTTCGAAATAATCAT+CGG | + | chr6_4:8950308-8950327 | None:intergenic | 30.0% | |
| TCATATCAAATGGTCCATTA+GGG | + | chr6_4:8950342-8950361 | None:intergenic | 30.0% | |
| TTCATATCAAATGGTCCATT+AGG | + | chr6_4:8950343-8950362 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_4 | gene | 8949287 | 8950471 | 8949287 | ID=Msa0975230;Name=Msa0975230 |
| chr6_4 | mRNA | 8949287 | 8950471 | 8949287 | ID=Msa0975230-mRNA-1;Parent=Msa0975230;Name=Msa0975230-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|394 |
| chr6_4 | exon | 8949287 | 8950471 | 8949287 | ID=Msa0975230-mRNA-1:exon:3192;Parent=Msa0975230-mRNA-1 |
| chr6_4 | CDS | 8949287 | 8950471 | 8949287 | ID=Msa0975230-mRNA-1:cds;Parent=Msa0975230-mRNA-1 |
| Gene Sequence |
>Msa0975230 ATGGAGGCAGTAGATTGGGGAAATTTAGAAGCACTTCCTCTTAGTTTGATTGTTGACAAGTTAGTAGAGCGTATCGATCACATTTATTTCAGCGTGGTATGCAAGAATTGGTATTCAATCGCAAAGTTTAGTTATCATAATCGCCAAATCAAAAACAATGTATTACCTATGCTAATGATTCCCACAAAAAGAAGGTGTAGAACAAAGAGATGTTTATATGGGATTTCATCCAACAAAATTTACCACTTCCAGTTACCAGTCCCTTATAACAAGAGGCTTTGTGGTTCAAGTCATGGTTGGGTAGCAAAGGTGGATTTTATTTCCAAACTTACAATAATAACCCTACTAAATCCCTTCAAAAATCTAGTTTCCATCCCTCTACCACCCATCTACATGCCAGATATATATAGAAGAGTTAGATATTATGAATGTAACGTTCATAAGGTTATTTTATCAGCAAATCCAACAATTAGGCCTCACGATTATGTTGTAGTTGCAATTTATGGTATGCGTAAATGTCTTGCTTTCATAAAAGCTGGACAAAAGTTTTGGACTTATGTTGATGACGACTATTTTTGCTTCAGTGATGTTATATTTTATAAAGGGTTAGTCTATGCCGCGGGACGATGGAATAACATTGTCTCTTTTGATATTTGTAACTCGAAGGATTCTTTTGATTGTGAGAAGATCATTCCTAATGTTGTTTCACCATGGGGGGATGATTTTGCTCATCGAGCATATTTTGTGAAATCATTGGAGGGAGACTTGTGGCTTGTAAGGAAATTTATTGGTTTTCCCGATGATGACACTGATGATGAAGATAGTAACTTGTCTAGTAGTGGTACTAAAAGATTCGAAGTGTATAAGTTGGAATTGGATCTTCAAAGTGGTAAGCTTATACAAATGTTAAAGCTTGATAGTTTGGGAGACAATGTTTTATTTGTGGGTGATAGTGATTCTGTATCTATGTCGGCTTCGTATTTTGGTAATTATCTACAAAAGGATTCAATTTATTACACCGATGATTATTTCGAAGAAGCACCGGATCCTTACCCTAATGGACCATTTGATATGAAAATCTATAATGTAAAAGATGGAAGCTTTAGTAAGCATTGCAATTTCGAACATTGGTTCACACGGATGCCACCTTCGGTGTGGGTTCTTCCGCCATTTCAGTGGGAATAA |
| Protein sequence |
>Msa0975230 MEAVDWGNLEALPLSLIVDKLVERIDHIYFSVVCKNWYSIAKFSYHNRQIKNNVLPMLMIPTKRRCRTKRCLYGISSNKIYHFQLPVPYNKRLCGSSHGWVAKVDFISKLTIITLLNPFKNLVSIPLPPIYMPDIYRRVRYYECNVHKVILSANPTIRPHDYVVVAIYGMRKCLAFIKAGQKFWTYVDDDYFCFSDVIFYKGLVYAAGRWNNIVSFDICNSKDSFDCEKIIPNVVSPWGDDFAHRAYFVKSLEGDLWLVRKFIGFPDDDTDDEDSNLSSSGTKRFEVYKLELDLQSGKLIQMLKLDSLGDNVLFVGDSDSVSMSASYFGNYLQKDSIYYTDDYFEEAPDPYPNGPFDMKIYNVKDGSFSKHCNFEHWFTRMPPSVWVLPPFQWE* |
