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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0493590 | XP_003603580.1 | 92.216 | 167 | 9 | 1 | 3 | 169 | 133 | 295 | 3.04e-108 | 321 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0493590 | sp|Q9FUD3|BZIP9_ARATH | 46.429 | 168 | 70 | 7 | 3 | 169 | 129 | 277 | 2.52e-32 | 119 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0493590 | G7J2W2 | 92.216 | 167 | 9 | 1 | 3 | 169 | 133 | 295 | 1.45e-108 | 321 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0493590 | TF | bZIP |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0383260 | Msa0493590 | 0.931164 | 5.658026e-94 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0493590 | MtrunA17_Chr3g0139301 | 92.216 | 167 | 9 | 1 | 3 | 169 | 133 | 295 | 2.80e-112 | 321 |
| Msa0493590 | MtrunA17_Chr1g0147491 | 59.236 | 157 | 55 | 7 | 15 | 169 | 190 | 339 | 5.03e-49 | 161 |
| Msa0493590 | MtrunA17_Chr3g0139571 | 80.882 | 68 | 13 | 0 | 1 | 68 | 7 | 74 | 8.04e-28 | 99.4 |
| Msa0493590 | MtrunA17_Chr1g0190761 | 51.136 | 88 | 39 | 2 | 15 | 102 | 229 | 312 | 5.87e-18 | 79.7 |
| Msa0493590 | MtrunA17_Chr7g0274141 | 57.143 | 63 | 27 | 0 | 15 | 77 | 214 | 276 | 5.80e-17 | 77.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0493590 | AT5G24800.1 | 46.429 | 168 | 70 | 7 | 3 | 169 | 129 | 277 | 2.56e-33 | 119 |
| Msa0493590 | AT5G28770.1 | 53.086 | 81 | 34 | 2 | 15 | 95 | 165 | 241 | 5.73e-18 | 79.3 |
| Msa0493590 | AT5G28770.2 | 53.086 | 81 | 34 | 2 | 15 | 95 | 172 | 248 | 5.90e-18 | 79.3 |
| Msa0493590 | AT5G28770.3 | 60.000 | 55 | 22 | 0 | 15 | 69 | 172 | 226 | 2.35e-14 | 68.9 |
| Msa0493590 | AT4G02640.2 | 44.000 | 75 | 39 | 1 | 15 | 89 | 242 | 313 | 5.62e-12 | 63.2 |
| Msa0493590 | AT4G02640.1 | 44.000 | 75 | 39 | 1 | 15 | 89 | 236 | 307 | 5.86e-12 | 63.2 |
| Msa0493590 | AT4G02640.3 | 44.000 | 75 | 39 | 1 | 15 | 89 | 242 | 313 | 5.92e-12 | 63.2 |
| Msa0493590 | AT4G02640.4 | 44.000 | 75 | 39 | 1 | 15 | 89 | 236 | 307 | 6.16e-12 | 63.2 |
Find 33 sgRNAs with CRISPR-Local
Find 96 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTATGAGTTGTGTAACTATT+TGG | 0.238588 | 3_4:-18910523 | Msa0493590:CDS |
| AATTCAAATCTTGCTGGGTT+TGG | 0.297271 | 3_4:-18910599 | Msa0493590:CDS |
| TCTTGCTGGGTTTGGAAACT+TGG | 0.301540 | 3_4:-18910591 | Msa0493590:CDS |
| AACACTACACAAACAGTTTA+CGG | 0.338361 | 3_4:-18910990 | Msa0493590:CDS |
| TGCCTCATACGGTGGTGTTC+CGG | 0.376655 | 3_4:-18910633 | Msa0493590:CDS |
| GTGCACAATTCAAATCTTGC+TGG | 0.391606 | 3_4:-18910605 | Msa0493590:CDS |
| ATTTCCCTGCTGGACATTGA+TGG | 0.397970 | 3_4:+18910658 | None:intergenic |
| TGATGTGGTGACAGAGCTTC+TGG | 0.398710 | 3_4:+18910778 | None:intergenic |
| TTTGAATTGTGCACGCCAAC+CGG | 0.414397 | 3_4:+18910614 | None:intergenic |
| GGTGAAGTTAGCTGAGGATA+TGG | 0.427027 | 3_4:-18910804 | Msa0493590:CDS |
| AACCGGAACACCACCGTATG+AGG | 0.428469 | 3_4:+18910631 | None:intergenic |
| TTTGTCTGAACTTGAGTCTC+AGG | 0.431765 | 3_4:-18911316 | Msa0493590:intron |
| CCCTGCTGGACATTGATGGT+TGG | 0.492984 | 3_4:+18910662 | None:intergenic |
| TGCACAATTCAAATCTTGCT+GGG | 0.493012 | 3_4:-18910604 | Msa0493590:CDS |
| ATGAGGCACTATTTCCCTGC+TGG | 0.505822 | 3_4:+18910648 | None:intergenic |
| GCCAACCATCAATGTCCAGC+AGG | 0.512549 | 3_4:-18910663 | Msa0493590:CDS |
| CACAACTCATAGCATTGCTT+AGG | 0.535820 | 3_4:+18910534 | None:intergenic |
| TGTAGAAGCTTTGAGAGCTA+AGG | 0.540256 | 3_4:-18910912 | Msa0493590:intron |
| TACAATGATGTCGTCGACAA+CGG | 0.542670 | 3_4:-18910560 | Msa0493590:CDS |
| AAACTGATTGTTTAGTGATG+TGG | 0.571542 | 3_4:+18910763 | None:intergenic |
| CAGGGAAATAGTGCCTCATA+CGG | 0.576934 | 3_4:-18910644 | Msa0493590:CDS |
| TCATACGGTGGTGTTCCGGT+TGG | 0.585749 | 3_4:-18910629 | Msa0493590:CDS |
| TACTATTCAACAATTTCATG+AGG | 0.600013 | 3_4:-18910966 | Msa0493590:CDS |
| GCGAGTCAACCAAGAGGTCA+AGG | 0.603161 | 3_4:-18911356 | Msa0493590:CDS |
| GGAAATAGTGCCTCATACGG+TGG | 0.626744 | 3_4:-18910641 | Msa0493590:CDS |
| TTAGTAGTCATGTTGAGTTG+TGG | 0.648094 | 3_4:+18910710 | None:intergenic |
| CCAACCATCAATGTCCAGCA+GGG | 0.666005 | 3_4:-18910662 | Msa0493590:CDS |
| ATAATAGGTGAAGTTAGCTG+AGG | 0.671237 | 3_4:-18910810 | Msa0493590:intron |
| GTAGTCATGTTGAGTTGTGG+CGG | 0.676620 | 3_4:+18910713 | None:intergenic |
| CAAATTGCGAGTCAACCAAG+AGG | 0.697375 | 3_4:-18911362 | Msa0493590:CDS |
| TTGGCGAAACATGTGGCATG+CGG | 0.727060 | 3_4:+18910681 | None:intergenic |
| AGTCAACCAAGAGGTCAAGG+TGG | 0.727607 | 3_4:-18911353 | Msa0493590:CDS |
| TTGATGGTTGGCGAAACATG+TGG | 0.736785 | 3_4:+18910674 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTAACATATACTATTATAAT+AGG | - | chr3_4:18911064-18911083 | Msa0493590:intron | 10.0% |
| !! | TTAACATATACTATTATAAT+AGG | - | chr3_4:18911064-18911083 | Msa0493590:intron | 10.0% |
| !!! | GAAGTCATTAATTTTGTTTC+TGG | - | chr3_4:18910614-18910633 | Msa0493590:CDS | 25.0% |
| !!! | AATTTTGTTTCTGGAATTGT+AGG | - | chr3_4:18910623-18910642 | Msa0493590:CDS | 25.0% |
| ! | TGAGAGATCAAAATTCAAAT+GGG | + | chr3_4:18910852-18910871 | None:intergenic | 25.0% |
| ! | TACTATTCAACAATTTCATG+AGG | - | chr3_4:18910923-18910942 | Msa0493590:CDS | 25.0% |
| !!! | GAAGTCATTAATTTTGTTTC+TGG | - | chr3_4:18910614-18910633 | Msa0493590:CDS | 25.0% |
| !!! | AATTTTGTTTCTGGAATTGT+AGG | - | chr3_4:18910623-18910642 | Msa0493590:CDS | 25.0% |
| ! | TGAGAGATCAAAATTCAAAT+GGG | + | chr3_4:18910852-18910871 | None:intergenic | 25.0% |
| ! | TACTATTCAACAATTTCATG+AGG | - | chr3_4:18910923-18910942 | Msa0493590:CDS | 25.0% |
| ! | TAATTCTGAGAGCAAATTCT+AGG | - | chr3_4:18910691-18910710 | Msa0493590:CDS | 30.0% |
| GTCACTGAAATAGAAATAGT+AGG | + | chr3_4:18910720-18910739 | None:intergenic | 30.0% | |
| CTGAGAGATCAAAATTCAAA+TGG | + | chr3_4:18910853-18910872 | None:intergenic | 30.0% | |
| !! | CATTTGAATTTTGATCTCTC+AGG | - | chr3_4:18910851-18910870 | Msa0493590:intron | 30.0% |
| AACACTACACAAACAGTTTA+CGG | - | chr3_4:18910899-18910918 | Msa0493590:intron | 30.0% | |
| AAACTGATTGTTTAGTGATG+TGG | + | chr3_4:18911129-18911148 | None:intergenic | 30.0% | |
| CTATGAGTTGTGTAACTATT+TGG | - | chr3_4:18911366-18911385 | Msa0493590:CDS | 30.0% | |
| ! | TAATTCTGAGAGCAAATTCT+AGG | - | chr3_4:18910691-18910710 | Msa0493590:CDS | 30.0% |
| GTCACTGAAATAGAAATAGT+AGG | + | chr3_4:18910720-18910739 | None:intergenic | 30.0% | |
| CTGAGAGATCAAAATTCAAA+TGG | + | chr3_4:18910853-18910872 | None:intergenic | 30.0% | |
| !! | CATTTGAATTTTGATCTCTC+AGG | - | chr3_4:18910851-18910870 | Msa0493590:intron | 30.0% |
| AACACTACACAAACAGTTTA+CGG | - | chr3_4:18910899-18910918 | Msa0493590:intron | 30.0% | |
| AAACTGATTGTTTAGTGATG+TGG | + | chr3_4:18911129-18911148 | None:intergenic | 30.0% | |
| CTATGAGTTGTGTAACTATT+TGG | - | chr3_4:18911366-18911385 | Msa0493590:CDS | 30.0% | |
| ! | CAGGTAACTAATCAGTGTTT+TGG | - | chr3_4:18910592-18910611 | Msa0493590:CDS | 35.0% |
| !! | TTGTTTCTGGAATTGTAGGT+AGG | - | chr3_4:18910627-18910646 | Msa0493590:CDS | 35.0% |
| CACAATTTGATATCTCATGC+AGG | - | chr3_4:18910653-18910672 | Msa0493590:CDS | 35.0% | |
| !! | CTACATCTGATTTTAGCACA+CGG | + | chr3_4:18910962-18910981 | None:intergenic | 35.0% |
| ATAATAGGTGAAGTTAGCTG+AGG | - | chr3_4:18911079-18911098 | Msa0493590:intron | 35.0% | |
| ! | TTAGTAGTCATGTTGAGTTG+TGG | + | chr3_4:18911182-18911201 | None:intergenic | 35.0% |
| TGCACAATTCAAATCTTGCT+GGG | - | chr3_4:18911285-18911304 | Msa0493590:intron | 35.0% | |
| AATTCAAATCTTGCTGGGTT+TGG | - | chr3_4:18911290-18911309 | Msa0493590:intron | 35.0% | |
| ! | CAGGTAACTAATCAGTGTTT+TGG | - | chr3_4:18910592-18910611 | Msa0493590:CDS | 35.0% |
| !! | TTGTTTCTGGAATTGTAGGT+AGG | - | chr3_4:18910627-18910646 | Msa0493590:CDS | 35.0% |
| CACAATTTGATATCTCATGC+AGG | - | chr3_4:18910653-18910672 | Msa0493590:CDS | 35.0% | |
| !! | CTACATCTGATTTTAGCACA+CGG | + | chr3_4:18910962-18910981 | None:intergenic | 35.0% |
| ATAATAGGTGAAGTTAGCTG+AGG | - | chr3_4:18911079-18911098 | Msa0493590:intron | 35.0% | |
| ! | TTAGTAGTCATGTTGAGTTG+TGG | + | chr3_4:18911182-18911201 | None:intergenic | 35.0% |
| TGCACAATTCAAATCTTGCT+GGG | - | chr3_4:18911285-18911304 | Msa0493590:intron | 35.0% | |
| AATTCAAATCTTGCTGGGTT+TGG | - | chr3_4:18911290-18911309 | Msa0493590:intron | 35.0% | |
| TTTGTCTGAACTTGAGTCTC+AGG | - | chr3_4:18910573-18910592 | Msa0493590:CDS | 40.0% | |
| !! | TCAGGTTGAAAAACTGTCAC+TGG | - | chr3_4:18910869-18910888 | Msa0493590:intron | 40.0% |
| !! | TGTAGAAGCTTTGAGAGCTA+AGG | - | chr3_4:18910977-18910996 | Msa0493590:CDS | 40.0% |
| GTGCACAATTCAAATCTTGC+TGG | - | chr3_4:18911284-18911303 | Msa0493590:intron | 40.0% | |
| TACAATGATGTCGTCGACAA+CGG | - | chr3_4:18911329-18911348 | Msa0493590:CDS | 40.0% | |
| CACAACTCATAGCATTGCTT+AGG | + | chr3_4:18911358-18911377 | None:intergenic | 40.0% | |
| GTTGTGTAACTATTTGGCCT+AGG | - | chr3_4:18911372-18911391 | Msa0493590:CDS | 40.0% | |
| TTTGTCTGAACTTGAGTCTC+AGG | - | chr3_4:18910573-18910592 | Msa0493590:CDS | 40.0% | |
| !! | TCAGGTTGAAAAACTGTCAC+TGG | - | chr3_4:18910869-18910888 | Msa0493590:intron | 40.0% |
| !! | TGTAGAAGCTTTGAGAGCTA+AGG | - | chr3_4:18910977-18910996 | Msa0493590:CDS | 40.0% |
| GTGCACAATTCAAATCTTGC+TGG | - | chr3_4:18911284-18911303 | Msa0493590:intron | 40.0% | |
| TACAATGATGTCGTCGACAA+CGG | - | chr3_4:18911329-18911348 | Msa0493590:CDS | 40.0% | |
| CACAACTCATAGCATTGCTT+AGG | + | chr3_4:18911358-18911377 | None:intergenic | 40.0% | |
| CAAATTGCGAGTCAACCAAG+AGG | - | chr3_4:18910527-18910546 | Msa0493590:CDS | 45.0% | |
| ! | TTTTCTCCACCTTGACCTCT+TGG | + | chr3_4:18910545-18910564 | None:intergenic | 45.0% |
| GGTGAAGTTAGCTGAGGATA+TGG | - | chr3_4:18911085-18911104 | Msa0493590:intron | 45.0% | |
| ! | GTAGTCATGTTGAGTTGTGG+CGG | + | chr3_4:18911179-18911198 | None:intergenic | 45.0% |
| ! | TTGATGGTTGGCGAAACATG+TGG | + | chr3_4:18911218-18911237 | None:intergenic | 45.0% |
| ATTTCCCTGCTGGACATTGA+TGG | + | chr3_4:18911234-18911253 | None:intergenic | 45.0% | |
| CAGGGAAATAGTGCCTCATA+CGG | - | chr3_4:18911245-18911264 | Msa0493590:intron | 45.0% | |
| TTTGAATTGTGCACGCCAAC+CGG | + | chr3_4:18911278-18911297 | None:intergenic | 45.0% | |
| TCTTGCTGGGTTTGGAAACT+TGG | - | chr3_4:18911298-18911317 | Msa0493590:intron | 45.0% | |
| ! | GACTCGCAATTTGAAACCCT+AGG | + | chr3_4:18910520-18910539 | None:intergenic | 45.0% |
| CAAATTGCGAGTCAACCAAG+AGG | - | chr3_4:18910527-18910546 | Msa0493590:CDS | 45.0% | |
| ! | TTTTCTCCACCTTGACCTCT+TGG | + | chr3_4:18910545-18910564 | None:intergenic | 45.0% |
| GGTGAAGTTAGCTGAGGATA+TGG | - | chr3_4:18911085-18911104 | Msa0493590:intron | 45.0% | |
| ! | GTAGTCATGTTGAGTTGTGG+CGG | + | chr3_4:18911179-18911198 | None:intergenic | 45.0% |
| ! | TTGATGGTTGGCGAAACATG+TGG | + | chr3_4:18911218-18911237 | None:intergenic | 45.0% |
| ATTTCCCTGCTGGACATTGA+TGG | + | chr3_4:18911234-18911253 | None:intergenic | 45.0% | |
| CAGGGAAATAGTGCCTCATA+CGG | - | chr3_4:18911245-18911264 | Msa0493590:intron | 45.0% | |
| TTTGAATTGTGCACGCCAAC+CGG | + | chr3_4:18911278-18911297 | None:intergenic | 45.0% | |
| TCTTGCTGGGTTTGGAAACT+TGG | - | chr3_4:18911298-18911317 | Msa0493590:intron | 45.0% | |
| AGTCAACCAAGAGGTCAAGG+TGG | - | chr3_4:18910536-18910555 | Msa0493590:CDS | 50.0% | |
| TGATGTGGTGACAGAGCTTC+TGG | + | chr3_4:18911114-18911133 | None:intergenic | 50.0% | |
| TTGGCGAAACATGTGGCATG+CGG | + | chr3_4:18911211-18911230 | None:intergenic | 50.0% | |
| CCAACCATCAATGTCCAGCA+GGG | - | chr3_4:18911227-18911246 | Msa0493590:intron | 50.0% | |
| ! | ATGAGGCACTATTTCCCTGC+TGG | + | chr3_4:18911244-18911263 | None:intergenic | 50.0% |
| GGAAATAGTGCCTCATACGG+TGG | - | chr3_4:18911248-18911267 | Msa0493590:intron | 50.0% | |
| AGTCAACCAAGAGGTCAAGG+TGG | - | chr3_4:18910536-18910555 | Msa0493590:CDS | 50.0% | |
| TGATGTGGTGACAGAGCTTC+TGG | + | chr3_4:18911114-18911133 | None:intergenic | 50.0% | |
| TTGGCGAAACATGTGGCATG+CGG | + | chr3_4:18911211-18911230 | None:intergenic | 50.0% | |
| CCAACCATCAATGTCCAGCA+GGG | - | chr3_4:18911227-18911246 | Msa0493590:intron | 50.0% | |
| ! | ATGAGGCACTATTTCCCTGC+TGG | + | chr3_4:18911244-18911263 | None:intergenic | 50.0% |
| GGAAATAGTGCCTCATACGG+TGG | - | chr3_4:18911248-18911267 | Msa0493590:intron | 50.0% | |
| GCGAGTCAACCAAGAGGTCA+AGG | - | chr3_4:18910533-18910552 | Msa0493590:CDS | 55.0% | |
| GCCAACCATCAATGTCCAGC+AGG | - | chr3_4:18911226-18911245 | Msa0493590:intron | 55.0% | |
| ! | CCCTGCTGGACATTGATGGT+TGG | + | chr3_4:18911230-18911249 | None:intergenic | 55.0% |
| TGCCTCATACGGTGGTGTTC+CGG | - | chr3_4:18911256-18911275 | Msa0493590:intron | 55.0% | |
| AACCGGAACACCACCGTATG+AGG | + | chr3_4:18911261-18911280 | None:intergenic | 55.0% | |
| TCATACGGTGGTGTTCCGGT+TGG | - | chr3_4:18911260-18911279 | Msa0493590:intron | 55.0% | |
| GCGAGTCAACCAAGAGGTCA+AGG | - | chr3_4:18910533-18910552 | Msa0493590:CDS | 55.0% | |
| GCCAACCATCAATGTCCAGC+AGG | - | chr3_4:18911226-18911245 | Msa0493590:intron | 55.0% | |
| ! | CCCTGCTGGACATTGATGGT+TGG | + | chr3_4:18911230-18911249 | None:intergenic | 55.0% |
| TGCCTCATACGGTGGTGTTC+CGG | - | chr3_4:18911256-18911275 | Msa0493590:intron | 55.0% | |
| AACCGGAACACCACCGTATG+AGG | + | chr3_4:18911261-18911280 | None:intergenic | 55.0% | |
| TCATACGGTGGTGTTCCGGT+TGG | - | chr3_4:18911260-18911279 | Msa0493590:intron | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 18910520 | 18911391 | 18910520 | ID=Msa0493590;Name=Msa0493590 |
| chr3_4 | mRNA | 18910520 | 18911391 | 18910520 | ID=Msa0493590-mRNA-1;Parent=Msa0493590;Name=Msa0493590-mRNA-1;_AED=0.09;_eAED=0.11;_QI=0|0|0|1|1|0.33|3|0|169 |
| chr3_4 | exon | 18911317 | 18911391 | 18911317 | ID=Msa0493590-mRNA-1:exon:5210;Parent=Msa0493590-mRNA-1 |
| chr3_4 | exon | 18910913 | 18911038 | 18910913 | ID=Msa0493590-mRNA-1:exon:5209;Parent=Msa0493590-mRNA-1 |
| chr3_4 | exon | 18910520 | 18910825 | 18910520 | ID=Msa0493590-mRNA-1:exon:5208;Parent=Msa0493590-mRNA-1 |
| chr3_4 | CDS | 18911317 | 18911391 | 18911317 | ID=Msa0493590-mRNA-1:cds;Parent=Msa0493590-mRNA-1 |
| chr3_4 | CDS | 18910913 | 18911038 | 18910913 | ID=Msa0493590-mRNA-1:cds;Parent=Msa0493590-mRNA-1 |
| chr3_4 | CDS | 18910520 | 18910825 | 18910520 | ID=Msa0493590-mRNA-1:cds;Parent=Msa0493590-mRNA-1 |
| Gene Sequence |
| Protein sequence |
