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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0383260 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0383260 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0383260 | G7J2W2 | 92.216 | 167 | 9 | 1 | 3 | 169 | 133 | 295 | 1.45e-108 | 321 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0383260 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0383260 | MtrunA17_Chr3g0139301 | 92.216 | 167 | 9 | 1 | 3 | 169 | 133 | 295 | 2.80e-112 | 321 |
| Msa0383260 | MtrunA17_Chr1g0147491 | 59.236 | 157 | 55 | 7 | 15 | 169 | 190 | 339 | 5.03e-49 | 161 |
| Msa0383260 | MtrunA17_Chr3g0139571 | 80.882 | 68 | 13 | 0 | 1 | 68 | 7 | 74 | 8.04e-28 | 99.4 |
| Msa0383260 | MtrunA17_Chr1g0190761 | 51.136 | 88 | 39 | 2 | 15 | 102 | 229 | 312 | 5.87e-18 | 79.7 |
| Msa0383260 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0383260 | AT5G24800.1 | 46.429 | 168 | 70 | 7 | 3 | 169 | 129 | 277 | 2.56e-33 | 119 |
| Msa0383260 | AT5G28770.1 | 53.086 | 81 | 34 | 2 | 15 | 95 | 165 | 241 | 5.73e-18 | 79.3 |
| Msa0383260 | AT5G28770.2 | 53.086 | 81 | 34 | 2 | 15 | 95 | 172 | 248 | 5.90e-18 | 79.3 |
| Msa0383260 | AT5G28770.3 | 60.000 | 55 | 22 | 0 | 15 | 69 | 172 | 226 | 2.35e-14 | 68.9 |
| Msa0383260 | AT4G02640.2 | 44.000 | 75 | 39 | 1 | 15 | 89 | 242 | 313 | 5.62e-12 | 63.2 |
| Msa0383260 | AT4G02640.1 | 44.000 | 75 | 39 | 1 | 15 | 89 | 236 | 307 | 5.86e-12 | 63.2 |
| Msa0383260 | AT4G02640.3 | 44.000 | 75 | 39 | 1 | 15 | 89 | 242 | 313 | 5.92e-12 | 63.2 |
| Msa0383260 | 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_1:-86094926 | Msa0383260:CDS |
| AATTCAAATCTTGCTGGGTT+TGG | 0.297271 | 3_1:-86095002 | Msa0383260:CDS |
| TCTTGCTGGGTTTGGAAACT+TGG | 0.301540 | 3_1:-86094994 | Msa0383260:CDS |
| AACACTACACAAACAGTTTA+CGG | 0.338361 | 3_1:-86095393 | Msa0383260:CDS |
| TGCCTCATACGGTGGTGTTC+CGG | 0.376655 | 3_1:-86095036 | Msa0383260:CDS |
| GTGCACAATTCAAATCTTGC+TGG | 0.391606 | 3_1:-86095008 | Msa0383260:CDS |
| ATTTCCCTGCTGGACATTGA+TGG | 0.397970 | 3_1:+86095061 | None:intergenic |
| TGATGTGGTGACAGAGCTTC+TGG | 0.398710 | 3_1:+86095181 | None:intergenic |
| TTTGAATTGTGCACGCCAAC+CGG | 0.414397 | 3_1:+86095017 | None:intergenic |
| GGTGAAGTTAGCTGAGGATA+TGG | 0.427027 | 3_1:-86095207 | Msa0383260:CDS |
| AACCGGAACACCACCGTATG+AGG | 0.428469 | 3_1:+86095034 | None:intergenic |
| TTTGTCTGAACTTGAGTCTC+AGG | 0.431765 | 3_1:-86095719 | Msa0383260:intron |
| CCCTGCTGGACATTGATGGT+TGG | 0.492984 | 3_1:+86095065 | None:intergenic |
| TGCACAATTCAAATCTTGCT+GGG | 0.493012 | 3_1:-86095007 | Msa0383260:CDS |
| ATGAGGCACTATTTCCCTGC+TGG | 0.505822 | 3_1:+86095051 | None:intergenic |
| GCCAACCATCAATGTCCAGC+AGG | 0.512549 | 3_1:-86095066 | Msa0383260:CDS |
| CACAACTCATAGCATTGCTT+AGG | 0.535820 | 3_1:+86094937 | None:intergenic |
| TGTAGAAGCTTTGAGAGCTA+AGG | 0.540256 | 3_1:-86095315 | Msa0383260:intron |
| TACAATGATGTCGTCGACAA+CGG | 0.542670 | 3_1:-86094963 | Msa0383260:CDS |
| AAACTGATTGTTTAGTGATG+TGG | 0.571542 | 3_1:+86095166 | None:intergenic |
| CAGGGAAATAGTGCCTCATA+CGG | 0.576934 | 3_1:-86095047 | Msa0383260:CDS |
| TCATACGGTGGTGTTCCGGT+TGG | 0.585749 | 3_1:-86095032 | Msa0383260:CDS |
| TACTATTCAACAATTTCATG+AGG | 0.600013 | 3_1:-86095369 | Msa0383260:CDS |
| GCGAGTCAACCAAGAGGTCA+AGG | 0.603161 | 3_1:-86095759 | Msa0383260:CDS |
| GGAAATAGTGCCTCATACGG+TGG | 0.626744 | 3_1:-86095044 | Msa0383260:CDS |
| TTAGTAGTCATGTTGAGTTG+TGG | 0.648094 | 3_1:+86095113 | None:intergenic |
| CCAACCATCAATGTCCAGCA+GGG | 0.666005 | 3_1:-86095065 | Msa0383260:CDS |
| ATAATAGGTGAAGTTAGCTG+AGG | 0.671237 | 3_1:-86095213 | Msa0383260:intron |
| GTAGTCATGTTGAGTTGTGG+CGG | 0.676620 | 3_1:+86095116 | None:intergenic |
| CAAATTGCGAGTCAACCAAG+AGG | 0.697375 | 3_1:-86095765 | Msa0383260:CDS |
| TTGGCGAAACATGTGGCATG+CGG | 0.727060 | 3_1:+86095084 | None:intergenic |
| AGTCAACCAAGAGGTCAAGG+TGG | 0.727607 | 3_1:-86095756 | Msa0383260:CDS |
| TTGATGGTTGGCGAAACATG+TGG | 0.736785 | 3_1:+86095077 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTAACATATACTATTATAAT+AGG | - | chr3_1:86095467-86095486 | Msa0383260:intron | 10.0% |
| !! | TTAACATATACTATTATAAT+AGG | - | chr3_1:86095467-86095486 | Msa0383260:intron | 10.0% |
| !!! | GAAGTCATTAATTTTGTTTC+TGG | - | chr3_1:86095017-86095036 | Msa0383260:CDS | 25.0% |
| !!! | AATTTTGTTTCTGGAATTGT+AGG | - | chr3_1:86095026-86095045 | Msa0383260:CDS | 25.0% |
| ! | TGAGAGATCAAAATTCAAAT+GGG | + | chr3_1:86095255-86095274 | None:intergenic | 25.0% |
| ! | TACTATTCAACAATTTCATG+AGG | - | chr3_1:86095326-86095345 | Msa0383260:CDS | 25.0% |
| !!! | GAAGTCATTAATTTTGTTTC+TGG | - | chr3_1:86095017-86095036 | Msa0383260:CDS | 25.0% |
| !!! | AATTTTGTTTCTGGAATTGT+AGG | - | chr3_1:86095026-86095045 | Msa0383260:CDS | 25.0% |
| ! | TGAGAGATCAAAATTCAAAT+GGG | + | chr3_1:86095255-86095274 | None:intergenic | 25.0% |
| ! | TACTATTCAACAATTTCATG+AGG | - | chr3_1:86095326-86095345 | Msa0383260:CDS | 25.0% |
| ! | TAATTCTGAGAGCAAATTCT+AGG | - | chr3_1:86095094-86095113 | Msa0383260:CDS | 30.0% |
| GTCACTGAAATAGAAATAGT+AGG | + | chr3_1:86095123-86095142 | None:intergenic | 30.0% | |
| CTGAGAGATCAAAATTCAAA+TGG | + | chr3_1:86095256-86095275 | None:intergenic | 30.0% | |
| !! | CATTTGAATTTTGATCTCTC+AGG | - | chr3_1:86095254-86095273 | Msa0383260:intron | 30.0% |
| AACACTACACAAACAGTTTA+CGG | - | chr3_1:86095302-86095321 | Msa0383260:intron | 30.0% | |
| AAACTGATTGTTTAGTGATG+TGG | + | chr3_1:86095532-86095551 | None:intergenic | 30.0% | |
| CTATGAGTTGTGTAACTATT+TGG | - | chr3_1:86095769-86095788 | Msa0383260:CDS | 30.0% | |
| ! | TAATTCTGAGAGCAAATTCT+AGG | - | chr3_1:86095094-86095113 | Msa0383260:CDS | 30.0% |
| GTCACTGAAATAGAAATAGT+AGG | + | chr3_1:86095123-86095142 | None:intergenic | 30.0% | |
| CTGAGAGATCAAAATTCAAA+TGG | + | chr3_1:86095256-86095275 | None:intergenic | 30.0% | |
| !! | CATTTGAATTTTGATCTCTC+AGG | - | chr3_1:86095254-86095273 | Msa0383260:intron | 30.0% |
| AACACTACACAAACAGTTTA+CGG | - | chr3_1:86095302-86095321 | Msa0383260:intron | 30.0% | |
| AAACTGATTGTTTAGTGATG+TGG | + | chr3_1:86095532-86095551 | None:intergenic | 30.0% | |
| CTATGAGTTGTGTAACTATT+TGG | - | chr3_1:86095769-86095788 | Msa0383260:CDS | 30.0% | |
| ! | CAGGTAACTAATCAGTGTTT+TGG | - | chr3_1:86094995-86095014 | Msa0383260:CDS | 35.0% |
| !! | TTGTTTCTGGAATTGTAGGT+AGG | - | chr3_1:86095030-86095049 | Msa0383260:CDS | 35.0% |
| CACAATTTGATATCTCATGC+AGG | - | chr3_1:86095056-86095075 | Msa0383260:CDS | 35.0% | |
| !! | CTACATCTGATTTTAGCACA+CGG | + | chr3_1:86095365-86095384 | None:intergenic | 35.0% |
| ATAATAGGTGAAGTTAGCTG+AGG | - | chr3_1:86095482-86095501 | Msa0383260:intron | 35.0% | |
| ! | TTAGTAGTCATGTTGAGTTG+TGG | + | chr3_1:86095585-86095604 | None:intergenic | 35.0% |
| TGCACAATTCAAATCTTGCT+GGG | - | chr3_1:86095688-86095707 | Msa0383260:intron | 35.0% | |
| AATTCAAATCTTGCTGGGTT+TGG | - | chr3_1:86095693-86095712 | Msa0383260:intron | 35.0% | |
| ! | CAGGTAACTAATCAGTGTTT+TGG | - | chr3_1:86094995-86095014 | Msa0383260:CDS | 35.0% |
| !! | TTGTTTCTGGAATTGTAGGT+AGG | - | chr3_1:86095030-86095049 | Msa0383260:CDS | 35.0% |
| CACAATTTGATATCTCATGC+AGG | - | chr3_1:86095056-86095075 | Msa0383260:CDS | 35.0% | |
| !! | CTACATCTGATTTTAGCACA+CGG | + | chr3_1:86095365-86095384 | None:intergenic | 35.0% |
| ATAATAGGTGAAGTTAGCTG+AGG | - | chr3_1:86095482-86095501 | Msa0383260:intron | 35.0% | |
| ! | TTAGTAGTCATGTTGAGTTG+TGG | + | chr3_1:86095585-86095604 | None:intergenic | 35.0% |
| TGCACAATTCAAATCTTGCT+GGG | - | chr3_1:86095688-86095707 | Msa0383260:intron | 35.0% | |
| AATTCAAATCTTGCTGGGTT+TGG | - | chr3_1:86095693-86095712 | Msa0383260:intron | 35.0% | |
| TTTGTCTGAACTTGAGTCTC+AGG | - | chr3_1:86094976-86094995 | Msa0383260:CDS | 40.0% | |
| !! | TCAGGTTGAAAAACTGTCAC+TGG | - | chr3_1:86095272-86095291 | Msa0383260:intron | 40.0% |
| !! | TGTAGAAGCTTTGAGAGCTA+AGG | - | chr3_1:86095380-86095399 | Msa0383260:CDS | 40.0% |
| GTGCACAATTCAAATCTTGC+TGG | - | chr3_1:86095687-86095706 | Msa0383260:intron | 40.0% | |
| TACAATGATGTCGTCGACAA+CGG | - | chr3_1:86095732-86095751 | Msa0383260:CDS | 40.0% | |
| CACAACTCATAGCATTGCTT+AGG | + | chr3_1:86095761-86095780 | None:intergenic | 40.0% | |
| GTTGTGTAACTATTTGGCCT+AGG | - | chr3_1:86095775-86095794 | Msa0383260:CDS | 40.0% | |
| TTTGTCTGAACTTGAGTCTC+AGG | - | chr3_1:86094976-86094995 | Msa0383260:CDS | 40.0% | |
| !! | TCAGGTTGAAAAACTGTCAC+TGG | - | chr3_1:86095272-86095291 | Msa0383260:intron | 40.0% |
| !! | TGTAGAAGCTTTGAGAGCTA+AGG | - | chr3_1:86095380-86095399 | Msa0383260:CDS | 40.0% |
| GTGCACAATTCAAATCTTGC+TGG | - | chr3_1:86095687-86095706 | Msa0383260:intron | 40.0% | |
| TACAATGATGTCGTCGACAA+CGG | - | chr3_1:86095732-86095751 | Msa0383260:CDS | 40.0% | |
| CACAACTCATAGCATTGCTT+AGG | + | chr3_1:86095761-86095780 | None:intergenic | 40.0% | |
| CAAATTGCGAGTCAACCAAG+AGG | - | chr3_1:86094930-86094949 | Msa0383260:CDS | 45.0% | |
| ! | TTTTCTCCACCTTGACCTCT+TGG | + | chr3_1:86094948-86094967 | None:intergenic | 45.0% |
| GGTGAAGTTAGCTGAGGATA+TGG | - | chr3_1:86095488-86095507 | Msa0383260:intron | 45.0% | |
| ! | GTAGTCATGTTGAGTTGTGG+CGG | + | chr3_1:86095582-86095601 | None:intergenic | 45.0% |
| ! | TTGATGGTTGGCGAAACATG+TGG | + | chr3_1:86095621-86095640 | None:intergenic | 45.0% |
| ATTTCCCTGCTGGACATTGA+TGG | + | chr3_1:86095637-86095656 | None:intergenic | 45.0% | |
| CAGGGAAATAGTGCCTCATA+CGG | - | chr3_1:86095648-86095667 | Msa0383260:intron | 45.0% | |
| TTTGAATTGTGCACGCCAAC+CGG | + | chr3_1:86095681-86095700 | None:intergenic | 45.0% | |
| TCTTGCTGGGTTTGGAAACT+TGG | - | chr3_1:86095701-86095720 | Msa0383260:intron | 45.0% | |
| ! | GACTCGCAATTTGAAACCCT+AGG | + | chr3_1:86094923-86094942 | None:intergenic | 45.0% |
| CAAATTGCGAGTCAACCAAG+AGG | - | chr3_1:86094930-86094949 | Msa0383260:CDS | 45.0% | |
| ! | TTTTCTCCACCTTGACCTCT+TGG | + | chr3_1:86094948-86094967 | None:intergenic | 45.0% |
| GGTGAAGTTAGCTGAGGATA+TGG | - | chr3_1:86095488-86095507 | Msa0383260:intron | 45.0% | |
| ! | GTAGTCATGTTGAGTTGTGG+CGG | + | chr3_1:86095582-86095601 | None:intergenic | 45.0% |
| ! | TTGATGGTTGGCGAAACATG+TGG | + | chr3_1:86095621-86095640 | None:intergenic | 45.0% |
| ATTTCCCTGCTGGACATTGA+TGG | + | chr3_1:86095637-86095656 | None:intergenic | 45.0% | |
| CAGGGAAATAGTGCCTCATA+CGG | - | chr3_1:86095648-86095667 | Msa0383260:intron | 45.0% | |
| TTTGAATTGTGCACGCCAAC+CGG | + | chr3_1:86095681-86095700 | None:intergenic | 45.0% | |
| TCTTGCTGGGTTTGGAAACT+TGG | - | chr3_1:86095701-86095720 | Msa0383260:intron | 45.0% | |
| AGTCAACCAAGAGGTCAAGG+TGG | - | chr3_1:86094939-86094958 | Msa0383260:CDS | 50.0% | |
| TGATGTGGTGACAGAGCTTC+TGG | + | chr3_1:86095517-86095536 | None:intergenic | 50.0% | |
| TTGGCGAAACATGTGGCATG+CGG | + | chr3_1:86095614-86095633 | None:intergenic | 50.0% | |
| CCAACCATCAATGTCCAGCA+GGG | - | chr3_1:86095630-86095649 | Msa0383260:intron | 50.0% | |
| ! | ATGAGGCACTATTTCCCTGC+TGG | + | chr3_1:86095647-86095666 | None:intergenic | 50.0% |
| GGAAATAGTGCCTCATACGG+TGG | - | chr3_1:86095651-86095670 | Msa0383260:intron | 50.0% | |
| AGTCAACCAAGAGGTCAAGG+TGG | - | chr3_1:86094939-86094958 | Msa0383260:CDS | 50.0% | |
| TGATGTGGTGACAGAGCTTC+TGG | + | chr3_1:86095517-86095536 | None:intergenic | 50.0% | |
| TTGGCGAAACATGTGGCATG+CGG | + | chr3_1:86095614-86095633 | None:intergenic | 50.0% | |
| CCAACCATCAATGTCCAGCA+GGG | - | chr3_1:86095630-86095649 | Msa0383260:intron | 50.0% | |
| ! | ATGAGGCACTATTTCCCTGC+TGG | + | chr3_1:86095647-86095666 | None:intergenic | 50.0% |
| GGAAATAGTGCCTCATACGG+TGG | - | chr3_1:86095651-86095670 | Msa0383260:intron | 50.0% | |
| GCGAGTCAACCAAGAGGTCA+AGG | - | chr3_1:86094936-86094955 | Msa0383260:CDS | 55.0% | |
| GCCAACCATCAATGTCCAGC+AGG | - | chr3_1:86095629-86095648 | Msa0383260:intron | 55.0% | |
| ! | CCCTGCTGGACATTGATGGT+TGG | + | chr3_1:86095633-86095652 | None:intergenic | 55.0% |
| TGCCTCATACGGTGGTGTTC+CGG | - | chr3_1:86095659-86095678 | Msa0383260:intron | 55.0% | |
| AACCGGAACACCACCGTATG+AGG | + | chr3_1:86095664-86095683 | None:intergenic | 55.0% | |
| TCATACGGTGGTGTTCCGGT+TGG | - | chr3_1:86095663-86095682 | Msa0383260:intron | 55.0% | |
| GCGAGTCAACCAAGAGGTCA+AGG | - | chr3_1:86094936-86094955 | Msa0383260:CDS | 55.0% | |
| GCCAACCATCAATGTCCAGC+AGG | - | chr3_1:86095629-86095648 | Msa0383260:intron | 55.0% | |
| ! | CCCTGCTGGACATTGATGGT+TGG | + | chr3_1:86095633-86095652 | None:intergenic | 55.0% |
| TGCCTCATACGGTGGTGTTC+CGG | - | chr3_1:86095659-86095678 | Msa0383260:intron | 55.0% | |
| AACCGGAACACCACCGTATG+AGG | + | chr3_1:86095664-86095683 | None:intergenic | 55.0% | |
| TCATACGGTGGTGTTCCGGT+TGG | - | chr3_1:86095663-86095682 | Msa0383260:intron | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 86094923 | 86095794 | 86094923 | ID=Msa0383260;Name=Msa0383260 |
| chr3_1 | mRNA | 86094923 | 86095794 | 86094923 | ID=Msa0383260-mRNA-1;Parent=Msa0383260;Name=Msa0383260-mRNA-1;_AED=0.09;_eAED=0.11;_QI=0|0|0|1|1|0.33|3|0|169 |
| chr3_1 | exon | 86095720 | 86095794 | 86095720 | ID=Msa0383260-mRNA-1:exon:22745;Parent=Msa0383260-mRNA-1 |
| chr3_1 | exon | 86095316 | 86095441 | 86095316 | ID=Msa0383260-mRNA-1:exon:22744;Parent=Msa0383260-mRNA-1 |
| chr3_1 | exon | 86094923 | 86095228 | 86094923 | ID=Msa0383260-mRNA-1:exon:22743;Parent=Msa0383260-mRNA-1 |
| chr3_1 | CDS | 86095720 | 86095794 | 86095720 | ID=Msa0383260-mRNA-1:cds;Parent=Msa0383260-mRNA-1 |
| chr3_1 | CDS | 86095316 | 86095441 | 86095316 | ID=Msa0383260-mRNA-1:cds;Parent=Msa0383260-mRNA-1 |
| chr3_1 | CDS | 86094923 | 86095228 | 86094923 | ID=Msa0383260-mRNA-1:cds;Parent=Msa0383260-mRNA-1 |
| Gene Sequence |
| Protein sequence |
