Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene49924.t1 | AES65228.2 | 93 | 100 | 7 | 0 | 3 | 102 | 128 | 227 | 1.10E-43 | 186 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene49924.t1 | Q0JBP5 | 75.0 | 32 | 8 | 0 | 103 | 134 | 56 | 87 | 8.1e-06 | 51.6 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene49924.t1 | A0A072V727 | 93.0 | 100 | 7 | 0 | 3 | 102 | 64 | 163 | 8.2e-44 | 186.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene05265 | MS.gene49924 | 0.812363 | 4.40E-51 | -1.69E-46 |
| MS.gene055058 | MS.gene49924 | 0.800497 | 1.40E-48 | -1.69E-46 |
| MS.gene058515 | MS.gene49924 | 0.80504 | 1.62E-49 | -1.69E-46 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene49924.t1 | MTR_2g036890 | 92.079 | 101 | 8 | 0 | 2 | 102 | 63 | 163 | 4.97e-59 | 192 |
| MS.gene49924.t1 | MTR_2g036890 | 92.079 | 101 | 8 | 0 | 2 | 102 | 63 | 163 | 7.18e-59 | 193 |
| MS.gene49924.t1 | MTR_2g036890 | 92.079 | 101 | 8 | 0 | 2 | 102 | 127 | 227 | 1.28e-58 | 193 |
| MS.gene49924.t1 | MTR_2g012650 | 90.816 | 98 | 9 | 0 | 5 | 102 | 66 | 163 | 1.01e-56 | 186 |
| MS.gene49924.t1 | MTR_2g012650 | 90.816 | 98 | 9 | 0 | 5 | 102 | 66 | 163 | 1.15e-56 | 186 |
| MS.gene49924.t1 | MTR_2g012650 | 90.816 | 98 | 9 | 0 | 5 | 102 | 66 | 163 | 1.60e-56 | 186 |
| MS.gene49924.t1 | MTR_2g012650 | 90.816 | 98 | 9 | 0 | 5 | 102 | 155 | 252 | 3.00e-56 | 186 |
| MS.gene49924.t1 | MTR_2g012650 | 90.816 | 98 | 9 | 0 | 5 | 102 | 154 | 251 | 3.63e-56 | 187 |
| MS.gene49924.t1 | MTR_4g415340 | 72.449 | 98 | 10 | 1 | 5 | 102 | 66 | 146 | 3.03e-40 | 136 |
| MS.gene49924.t1 | MTR_1g015830 | 93.750 | 32 | 2 | 0 | 103 | 134 | 37 | 68 | 3.42e-13 | 63.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene49924.t1 | AT1G17690 | 39.744 | 78 | 43 | 2 | 28 | 101 | 149 | 226 | 3.26e-11 | 60.1 |
Find 33 sgRNAs with CRISPR-Local
Find 65 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATTCAGATGAAGAGGATATT+AGG | 0.300475 | 6.4:-59020888 | MS.gene49924:CDS |
| GGTTTGAATTTCAGGTTAAA+AGG | 0.321027 | 6.4:-59019950 | MS.gene49924:intron |
| AATTCTGATGACAATGGTTC+TGG | 0.331848 | 6.4:-59020955 | MS.gene49924:CDS |
| AGCTGAATTTCAAGTTCTCT+TGG | 0.357070 | 6.4:+59020401 | None:intergenic |
| TGGTGGAAGTGTTGGATTGA+TGG | 0.357231 | 6.4:-59019907 | MS.gene49924:CDS |
| ATATCTCAGAAAATGTATAA+TGG | 0.425060 | 6.4:-59019879 | MS.gene49924:CDS |
| AATTGCCAATGGACAGGAAC+TGG | 0.442067 | 6.4:-59020352 | MS.gene49924:CDS |
| AATGGTTCTGGACTAATAGA+AGG | 0.461206 | 6.4:-59020943 | MS.gene49924:CDS |
| GAAGAGGATATTAGGACAAA+TGG | 0.473711 | 6.4:-59020880 | MS.gene49924:CDS |
| GTGTATGGTGGTGGAAGTGT+TGG | 0.474413 | 6.4:-59019915 | MS.gene49924:CDS |
| CAATTTGAGACACCGACAAC+TGG | 0.481431 | 6.4:+59020370 | None:intergenic |
| AGCTGGGATGTACCAGTTGT+CGG | 0.485709 | 6.4:-59020382 | MS.gene49924:CDS |
| AAGAGAACTTGAAATTCAGC+TGG | 0.485994 | 6.4:-59020399 | MS.gene49924:CDS |
| TTTCGCCAGTTCCTGTCCAT+TGG | 0.496888 | 6.4:+59020347 | None:intergenic |
| GTCTCAAATTGCCAATGGAC+AGG | 0.501435 | 6.4:-59020358 | MS.gene49924:CDS |
| GGTTAAAAGGAACATATACT+TGG | 0.504303 | 6.4:-59019937 | MS.gene49924:CDS |
| ATGGCTAGAATTAATGTTGT+GGG | 0.512597 | 6.4:-59020991 | MS.gene49924:CDS |
| AACTGGCGAAAATATATTGA+AGG | 0.515667 | 6.4:-59020335 | MS.gene49924:intron |
| AGGAACATATACTTGGTGTA+TGG | 0.516067 | 6.4:-59019930 | MS.gene49924:CDS |
| CTGAGGATTCAGTGGATCTG+AGG | 0.553470 | 6.4:-59020846 | MS.gene49924:intron |
| CAGCAAAATTCTGATGACAA+TGG | 0.555565 | 6.4:-59020961 | MS.gene49924:CDS |
| AATGGCTAGAATTAATGTTG+TGG | 0.564684 | 6.4:-59020992 | MS.gene49924:CDS |
| AATAGAAGGTTCTGAGACTG+AGG | 0.567917 | 6.4:-59020929 | MS.gene49924:CDS |
| ATATACTTGGTGTATGGTGG+TGG | 0.570706 | 6.4:-59019924 | MS.gene49924:CDS |
| TCGGTGTCTCAAATTGCCAA+TGG | 0.599064 | 6.4:-59020363 | MS.gene49924:CDS |
| AGCCACATCTGAGGATTCAG+TGG | 0.611898 | 6.4:-59020854 | MS.gene49924:CDS |
| ATCCACTGAATCCTCAGATG+TGG | 0.615614 | 6.4:+59020852 | None:intergenic |
| GAGGATATTAGGACAAATGG+TGG | 0.617892 | 6.4:-59020877 | MS.gene49924:CDS |
| TCTCAGAAAATGTATAATGG+TGG | 0.630996 | 6.4:-59019876 | MS.gene49924:CDS |
| AGAGAACTTGAAATTCAGCT+GGG | 0.638594 | 6.4:-59020398 | MS.gene49924:CDS |
| AAATGGTGGAGCCACATCTG+AGG | 0.640560 | 6.4:-59020863 | MS.gene49924:CDS |
| AGAAGGTTCTGAGACTGAGG+AGG | 0.665177 | 6.4:-59020926 | MS.gene49924:CDS |
| AACATATACTTGGTGTATGG+TGG | 0.677448 | 6.4:-59019927 | MS.gene49924:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TATATATTTTCATATTAAGT+AGG | - | chr6.4:59020358-59020377 | MS.gene49924:CDS | 10.0% |
| !! | ATAAGTTATTCCAAAATTAT+TGG | - | chr6.4:59020870-59020889 | MS.gene49924:CDS | 15.0% |
| !! | CATTCTAAATAGATTTAATT+TGG | - | chr6.4:59020916-59020935 | MS.gene49924:CDS | 15.0% |
| !!! | AATTATGAAAGTATTTAACA+TGG | + | chr6.4:59019911-59019930 | None:intergenic | 15.0% |
| !!! | TTGTATAAAAAAAGTATGAA+CGG | + | chr6.4:59019871-59019890 | None:intergenic | 15.0% |
| !! | ATATCTCAGAAAATGTATAA+TGG | - | chr6.4:59020691-59020710 | MS.gene49924:intron | 20.0% |
| !! | TTTCTAATTGGAATAAAGAT+TGG | + | chr6.4:59019831-59019850 | None:intergenic | 20.0% |
| !!! | TTTGATATTAGTTTATCATC+TGG | - | chr6.4:59020963-59020982 | MS.gene49924:CDS | 20.0% |
| ! | AATGAATGAATACATCCTAT+TGG | + | chr6.4:59020385-59020404 | None:intergenic | 25.0% |
| ! | ACAAAAACCAATTCATTTCT+AGG | + | chr6.4:59020944-59020963 | None:intergenic | 25.0% |
| ! | ATTCATTCATTTCCTTATAG+AGG | - | chr6.4:59020394-59020413 | MS.gene49924:CDS | 25.0% |
| ! | CAAAAACCAATTCATTTCTA+GGG | + | chr6.4:59020943-59020962 | None:intergenic | 25.0% |
| !! | AAAAAAAGTATGAACGGAAA+TGG | + | chr6.4:59019865-59019884 | None:intergenic | 25.0% |
| !! | AATCAAAACTTTTCTATCCA+AGG | + | chr6.4:59019781-59019800 | None:intergenic | 25.0% |
| !! | ATATATTTTCTTTCACACCT+TGG | - | chr6.4:59019761-59019780 | MS.gene49924:intron | 25.0% |
| !! | GAGAAACAAACCAATAATTT+TGG | + | chr6.4:59020883-59020902 | None:intergenic | 25.0% |
| !! | GCAAGATTTTCATTTCTAAT+TGG | + | chr6.4:59019843-59019862 | None:intergenic | 25.0% |
| !! | TTAATGTTGTTGTCTTTTTG+CGG | - | chr6.4:59020599-59020618 | MS.gene49924:intron | 25.0% |
| !!! | AGTTTTGAACTTACAAAATG+AGG | + | chr6.4:59020302-59020321 | None:intergenic | 25.0% |
| !!! | TATAGTGTTTGAGTTTGTTT+TGG | + | chr6.4:59020342-59020361 | None:intergenic | 25.0% |
| AACTGGCGAAAATATATTGA+AGG | - | chr6.4:59020235-59020254 | MS.gene49924:intron | 30.0% | |
| ATGGCTAGAATTAATGTTGT+GGG | - | chr6.4:59019579-59019598 | MS.gene49924:intron | 30.0% | |
| ATTCAGATGAAGAGGATATT+AGG | - | chr6.4:59019682-59019701 | MS.gene49924:intron | 30.0% | |
| GCTAGCTAGATAGTATTAAT+CGG | + | chr6.4:59019978-59019997 | None:intergenic | 30.0% | |
| GGTTAAAAGGAACATATACT+TGG | - | chr6.4:59020633-59020652 | MS.gene49924:intron | 30.0% | |
| TATGTAAGACTTCCTCTATA+AGG | + | chr6.4:59020409-59020428 | None:intergenic | 30.0% | |
| TCATATTAAGTAGGACCAAT+AGG | - | chr6.4:59020367-59020386 | MS.gene49924:CDS | 30.0% | |
| TCTCAGAAAATGTATAATGG+TGG | - | chr6.4:59020694-59020713 | MS.gene49924:intron | 30.0% | |
| ! | TTGAAGGTATATAGTGCTAT+TGG | - | chr6.4:59020251-59020270 | MS.gene49924:intron | 30.0% |
| !! | GGTTTGAATTTCAGGTTAAA+AGG | - | chr6.4:59020620-59020639 | MS.gene49924:intron | 30.0% |
| AAGAGAACTTGAAATTCAGC+TGG | - | chr6.4:59020171-59020190 | MS.gene49924:intron | 35.0% | |
| AATTCTGATGACAATGGTTC+TGG | - | chr6.4:59019615-59019634 | MS.gene49924:intron | 35.0% | |
| AGAGAACTTGAAATTCAGCT+GGG | - | chr6.4:59020172-59020191 | MS.gene49924:intron | 35.0% | |
| CAGCAAAATTCTGATGACAA+TGG | - | chr6.4:59019609-59019628 | MS.gene49924:intron | 35.0% | |
| GAAGAGGATATTAGGACAAA+TGG | - | chr6.4:59019690-59019709 | MS.gene49924:intron | 35.0% | |
| GAATAAAGATTGGAGAGCTT+TGG | + | chr6.4:59019821-59019840 | None:intergenic | 35.0% | |
| GGATTCATTACAAATCATGC+AGG | + | chr6.4:59019957-59019976 | None:intergenic | 35.0% | |
| TATCCAAGATTTCTTGTCTC+TGG | - | chr6.4:59020276-59020295 | MS.gene49924:intron | 35.0% | |
| TTTGGTCCCTAGAAATGAAT+TGG | - | chr6.4:59020934-59020953 | MS.gene49924:CDS | 35.0% | |
| ! | CTTTTTGCGGTTTGAATTTC+AGG | - | chr6.4:59020612-59020631 | MS.gene49924:intron | 35.0% |
| ! | GTTTTCTCATTCAGATGAAG+AGG | - | chr6.4:59019674-59019693 | MS.gene49924:intron | 35.0% |
| !! | AACATATACTTGGTGTATGG+TGG | - | chr6.4:59020643-59020662 | MS.gene49924:intron | 35.0% |
| !! | AATGGTTCTGGACTAATAGA+AGG | - | chr6.4:59019627-59019646 | MS.gene49924:intron | 35.0% |
| !! | AGCTGAATTTCAAGTTCTCT+TGG | + | chr6.4:59020172-59020191 | None:intergenic | 35.0% |
| !! | AGGAACATATACTTGGTGTA+TGG | - | chr6.4:59020640-59020659 | MS.gene49924:intron | 35.0% |
| GACGAACGAATTTGAGAAGA+GGG | + | chr6.4:59020488-59020507 | None:intergenic | 40.0% | |
| GAGGATATTAGGACAAATGG+TGG | - | chr6.4:59019693-59019712 | MS.gene49924:intron | 40.0% | |
| TGACGAACGAATTTGAGAAG+AGG | + | chr6.4:59020489-59020508 | None:intergenic | 40.0% | |
| !! | AATAGAAGGTTCTGAGACTG+AGG | - | chr6.4:59019641-59019660 | MS.gene49924:intron | 40.0% |
| !! | ATATACTTGGTGTATGGTGG+TGG | - | chr6.4:59020646-59020665 | MS.gene49924:intron | 40.0% |
| AATTGCCAATGGACAGGAAC+TGG | - | chr6.4:59020218-59020237 | MS.gene49924:intron | 45.0% | |
| AGGCCAGAGACAAGAAATCT+TGG | + | chr6.4:59020282-59020301 | None:intergenic | 45.0% | |
| ATCCACTGAATCCTCAGATG+TGG | + | chr6.4:59019721-59019740 | None:intergenic | 45.0% | |
| GTCTCAAATTGCCAATGGAC+AGG | - | chr6.4:59020212-59020231 | MS.gene49924:intron | 45.0% | |
| ! | CAATTTGAGACACCGACAAC+TGG | + | chr6.4:59020203-59020222 | None:intergenic | 45.0% |
| ! | TCGGTGTCTCAAATTGCCAA+TGG | - | chr6.4:59020207-59020226 | MS.gene49924:intron | 45.0% |
| !! | TGGTGGAAGTGTTGGATTGA+TGG | - | chr6.4:59020663-59020682 | MS.gene49924:intron | 45.0% |
| !!! | GGATCGTGTTTTGATGACAG+TGG | - | chr6.4:59020984-59021003 | MS.gene49924:CDS | 45.0% |
| AGCCACATCTGAGGATTCAG+TGG | - | chr6.4:59019716-59019735 | MS.gene49924:intron | 50.0% | |
| AGCTGGGATGTACCAGTTGT+CGG | - | chr6.4:59020188-59020207 | MS.gene49924:intron | 50.0% | |
| CTGAGGATTCAGTGGATCTG+AGG | - | chr6.4:59019724-59019743 | MS.gene49924:intron | 50.0% | |
| TTTCGCCAGTTCCTGTCCAT+TGG | + | chr6.4:59020226-59020245 | None:intergenic | 50.0% | |
| ! | AAATGGTGGAGCCACATCTG+AGG | - | chr6.4:59019707-59019726 | MS.gene49924:intron | 50.0% |
| !! | AGAAGGTTCTGAGACTGAGG+AGG | - | chr6.4:59019644-59019663 | MS.gene49924:intron | 50.0% |
| !! | GTGTATGGTGGTGGAAGTGT+TGG | - | chr6.4:59020655-59020674 | MS.gene49924:intron | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6.4 | gene | 59019579 | 59021013 | 59019579 | ID=MS.gene49924 |
| chr6.4 | mRNA | 59019579 | 59021013 | 59019579 | ID=MS.gene49924.t1;Parent=MS.gene49924 |
| chr6.4 | exon | 59020847 | 59021013 | 59020847 | ID=MS.gene49924.t1.exon1;Parent=MS.gene49924.t1 |
| chr6.4 | CDS | 59020847 | 59021013 | 59020847 | ID=cds.MS.gene49924.t1;Parent=MS.gene49924.t1 |
| chr6.4 | exon | 59020336 | 59020474 | 59020336 | ID=MS.gene49924.t1.exon2;Parent=MS.gene49924.t1 |
| chr6.4 | CDS | 59020336 | 59020474 | 59020336 | ID=cds.MS.gene49924.t1;Parent=MS.gene49924.t1 |
| chr6.4 | exon | 59019861 | 59019958 | 59019861 | ID=MS.gene49924.t1.exon3;Parent=MS.gene49924.t1 |
| chr6.4 | CDS | 59019861 | 59019958 | 59019861 | ID=cds.MS.gene49924.t1;Parent=MS.gene49924.t1 |
| chr6.4 | exon | 59019579 | 59019588 | 59019579 | ID=MS.gene49924.t1.exon4;Parent=MS.gene49924.t1 |
| chr6.4 | CDS | 59019579 | 59019588 | 59019579 | ID=cds.MS.gene49924.t1;Parent=MS.gene49924.t1 |
| Gene Sequence |
| Protein sequence |
