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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1352000 | AES80962.1 | 84.946 | 93 | 14 | 0 | 82 | 174 | 113 | 205 | 1.87e-48 | 166 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1352000 | G7L1M8 | 84.946 | 93 | 14 | 0 | 82 | 174 | 113 | 205 | 8.92e-49 | 166 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0744640 | Msa1352000 | 0.805395 | 1.362765e-49 | -8.615850e-47 |
| Msa0833270 | Msa1352000 | 0.804514 | 2.083259e-49 | -8.615850e-47 |
| Msa0841730 | Msa1352000 | 0.805424 | 1.344069e-49 | -8.615850e-47 |
| Msa1238600 | Msa1352000 | 0.815115 | 1.090595e-51 | -8.615850e-47 |
| Msa1032480 | Msa1352000 | 0.804433 | 2.164881e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1352000 | MtrunA17_Chr7g0254281 | 87.500 | 88 | 11 | 0 | 87 | 174 | 3 | 90 | 8.11e-52 | 161 |
| Msa1352000 | MtrunA17_Chr8g0362511 | 43.836 | 73 | 41 | 0 | 99 | 171 | 291 | 363 | 8.30e-17 | 76.6 |
| Msa1352000 | MtrunA17_Chr5g0402821 | 43.750 | 64 | 36 | 0 | 108 | 171 | 259 | 322 | 4.50e-13 | 65.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 23 sgRNAs with CRISPR-Local
Find 110 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACCGAACAATACATGTAAA+TGG | 0.264957 | tig0012398:-45945 | None:intergenic |
| TCTTAAGGACAAACGTCTTT+TGG | 0.272617 | tig0012398:+46198 | Msa1352000:CDS |
| TGAAATCTTGTTAACTCTTA+AGG | 0.281042 | tig0012398:+46183 | Msa1352000:CDS |
| GTTGAAGTCCTTGCTTGTTT+TGG | 0.285125 | tig0012398:-45325 | None:intergenic |
| GAAATATTGCTTTGATGATT+TGG | 0.310586 | tig0012398:+46291 | Msa1352000:CDS |
| GAGCAGTGAACAATTGGTTT+TGG | 0.351180 | tig0012398:-45283 | None:intergenic |
| AACAAGATTTCAATGCAATT+CGG | 0.397605 | tig0012398:-46172 | None:intergenic |
| TTCCATTTACATGTATTGTT+CGG | 0.403043 | tig0012398:+45943 | Msa1352000:CDS |
| CTGGTGGAGCAGTGAACAAT+TGG | 0.421197 | tig0012398:-45289 | None:intergenic |
| AAATATAAATTCATTGCAAT+AGG | 0.438907 | tig0012398:-46463 | None:intergenic |
| GCTTTAGAATTGATTAAAGA+TGG | 0.453577 | tig0012398:+46241 | Msa1352000:CDS |
| TCATTCGGATGTTAAACCTC+CGG | 0.499104 | tig0012398:+46378 | Msa1352000:three_prime_UTR |
| GGAGACACATCTTATATCAA+TGG | 0.499972 | tig0012398:+46136 | Msa1352000:CDS |
| ATTCACACACACATTAGAAC+CGG | 0.509522 | tig0012398:-46397 | None:intergenic |
| TGGTGTTGTAATGTCTCTGG+TGG | 0.520732 | tig0012398:-45305 | None:intergenic |
| GCTTTGATGATTTGGCGACT+TGG | 0.547204 | tig0012398:+46299 | Msa1352000:CDS |
| TTTGAGTCGATATTGCATGT+TGG | 0.585094 | tig0012398:-45920 | None:intergenic |
| ATGGGCTTACATCAGACATG+AGG | 0.625000 | tig0012398:-45357 | None:intergenic |
| CACACACACATTAGAACCGG+AGG | 0.636475 | tig0012398:-46394 | None:intergenic |
| TGGGCTTACATCAGACATGA+GGG | 0.651055 | tig0012398:-45356 | None:intergenic |
| GAAAGTCAACAAAATCATTG+TGG | 0.661027 | tig0012398:-45850 | None:intergenic |
| ATGCGAAGTTACATGTTCAG+AGG | 0.665856 | tig0012398:-45985 | None:intergenic |
| TTACAACACCAAAACAAGCA+AGG | 0.668619 | tig0012398:+45317 | Msa1352000:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAAAAAAAAAATAGTGTAA+AGG | - | tig0012398:45775-45794 | None:intergenic | 10.0% |
| !! | AAAAAAAAAAAATAGTGTAA+AGG | - | tig0012398:45775-45794 | None:intergenic | 10.0% |
| !!! | TTAAGATTTTTCTTTTCATT+CGG | + | tig0012398:46363-46382 | Msa1352000:exon | 15.0% |
| !!! | TTAAGATTTTTCTTTTCATT+CGG | + | tig0012398:46363-46382 | Msa1352000:exon | 15.0% |
| !! | AATAACTTAAAAAGAGAGAT+GGG | - | tig0012398:45378-45397 | None:intergenic | 20.0% |
| !! | TAATAACTTAAAAAGAGAGA+TGG | - | tig0012398:45379-45398 | None:intergenic | 20.0% |
| !!! | TGATTTTAGATGTTTCAATT+TGG | + | tig0012398:45476-45495 | Msa1352000:intron | 20.0% |
| !! | TTTAATATCAACTGAATGTT+TGG | + | tig0012398:45509-45528 | Msa1352000:intron | 20.0% |
| !! | TTAATATCAACTGAATGTTT+GGG | + | tig0012398:45510-45529 | Msa1352000:intron | 20.0% |
| !! | ATCTGATCAAAAAAATTACA+TGG | + | tig0012398:45664-45683 | Msa1352000:intron | 20.0% |
| !! | ATAGTTGAAAAAGATGATAA+TGG | + | tig0012398:46115-46134 | Msa1352000:CDS | 20.0% |
| !!! | GATAATCTTCAATTTTAAGA+AGG | + | tig0012398:46321-46340 | Msa1352000:CDS | 20.0% |
| !! | AATAACTTAAAAAGAGAGAT+GGG | - | tig0012398:45378-45397 | None:intergenic | 20.0% |
| !! | TAATAACTTAAAAAGAGAGA+TGG | - | tig0012398:45379-45398 | None:intergenic | 20.0% |
| !!! | TGATTTTAGATGTTTCAATT+TGG | + | tig0012398:45476-45495 | Msa1352000:intron | 20.0% |
| !! | TTTAATATCAACTGAATGTT+TGG | + | tig0012398:45509-45528 | Msa1352000:intron | 20.0% |
| !! | TTAATATCAACTGAATGTTT+GGG | + | tig0012398:45510-45529 | Msa1352000:intron | 20.0% |
| !! | ATCTGATCAAAAAAATTACA+TGG | + | tig0012398:45664-45683 | Msa1352000:intron | 20.0% |
| !! | ATAGTTGAAAAAGATGATAA+TGG | + | tig0012398:46115-46134 | Msa1352000:CDS | 20.0% |
| !!! | GATAATCTTCAATTTTAAGA+AGG | + | tig0012398:46321-46340 | Msa1352000:CDS | 20.0% |
| ! | TAATATCAACTGAATGTTTG+GGG | + | tig0012398:45511-45530 | Msa1352000:intron | 25.0% |
| ! | GATTTCAACCAAATCTAAAT+TGG | + | tig0012398:45564-45583 | Msa1352000:intron | 25.0% |
| ! | AATGCAAACCAATTTAGATT+TGG | - | tig0012398:45575-45594 | None:intergenic | 25.0% |
| ! | AAAAAATTACATGGTTGACT+TGG | + | tig0012398:45673-45692 | Msa1352000:intron | 25.0% |
| ! | AAAGTCAACACTTATATCAT+TGG | - | tig0012398:45750-45769 | None:intergenic | 25.0% |
| !! | GATACTTTTATGAGTATGTT+TGG | + | tig0012398:45804-45823 | Msa1352000:intron | 25.0% |
| ! | GACTTTCGTAAAAAATTACA+TGG | + | tig0012398:45866-45885 | Msa1352000:CDS | 25.0% |
| ! | TTCCATTTACATGTATTGTT+CGG | + | tig0012398:45943-45962 | Msa1352000:CDS | 25.0% |
| !!! | TTCGTTGTGTTTTTTACATT+AGG | + | tig0012398:46063-46082 | Msa1352000:intron | 25.0% |
| !!! | TTTTTTACATTAGGTGAAAG+AGG | + | tig0012398:46072-46091 | Msa1352000:intron | 25.0% |
| ! | AACAAGATTTCAATGCAATT+CGG | - | tig0012398:46175-46194 | None:intergenic | 25.0% |
| ! | TGAAATCTTGTTAACTCTTA+AGG | + | tig0012398:46183-46202 | Msa1352000:CDS | 25.0% |
| !!! | GCTTTAGAATTGATTAAAGA+TGG | + | tig0012398:46241-46260 | Msa1352000:CDS | 25.0% |
| !! | GAAATATTGCTTTGATGATT+TGG | + | tig0012398:46291-46310 | Msa1352000:CDS | 25.0% |
| ! | TAATATCAACTGAATGTTTG+GGG | + | tig0012398:45511-45530 | Msa1352000:intron | 25.0% |
| ! | GATTTCAACCAAATCTAAAT+TGG | + | tig0012398:45564-45583 | Msa1352000:intron | 25.0% |
| ! | AATGCAAACCAATTTAGATT+TGG | - | tig0012398:45575-45594 | None:intergenic | 25.0% |
| ! | AAAAAATTACATGGTTGACT+TGG | + | tig0012398:45673-45692 | Msa1352000:intron | 25.0% |
| ! | AAAGTCAACACTTATATCAT+TGG | - | tig0012398:45750-45769 | None:intergenic | 25.0% |
| !! | GATACTTTTATGAGTATGTT+TGG | + | tig0012398:45804-45823 | Msa1352000:intron | 25.0% |
| ! | GACTTTCGTAAAAAATTACA+TGG | + | tig0012398:45866-45885 | Msa1352000:CDS | 25.0% |
| ! | TTCCATTTACATGTATTGTT+CGG | + | tig0012398:45943-45962 | Msa1352000:CDS | 25.0% |
| !!! | TTCGTTGTGTTTTTTACATT+AGG | + | tig0012398:46063-46082 | Msa1352000:intron | 25.0% |
| !!! | TTTTTTACATTAGGTGAAAG+AGG | + | tig0012398:46072-46091 | Msa1352000:intron | 25.0% |
| ! | AACAAGATTTCAATGCAATT+CGG | - | tig0012398:46175-46194 | None:intergenic | 25.0% |
| ! | TGAAATCTTGTTAACTCTTA+AGG | + | tig0012398:46183-46202 | Msa1352000:CDS | 25.0% |
| !!! | GCTTTAGAATTGATTAAAGA+TGG | + | tig0012398:46241-46260 | Msa1352000:CDS | 25.0% |
| !! | GAAATATTGCTTTGATGATT+TGG | + | tig0012398:46291-46310 | Msa1352000:CDS | 25.0% |
| GTAGTAAATGAAGTAGAGAT+AGG | - | tig0012398:45455-45474 | None:intergenic | 30.0% | |
| CTATCAAGATTCAGATCATA+TGG | + | tig0012398:45631-45650 | Msa1352000:intron | 30.0% | |
| TTTATGAGTATGTTTGGATC+AGG | + | tig0012398:45810-45829 | Msa1352000:intron | 30.0% | |
| GAAAGTCAACAAAATCATTG+TGG | - | tig0012398:45853-45872 | None:intergenic | 30.0% | |
| AACCGAACAATACATGTAAA+TGG | - | tig0012398:45948-45967 | None:intergenic | 30.0% | |
| GTAGTAAATGAAGTAGAGAT+AGG | - | tig0012398:45455-45474 | None:intergenic | 30.0% | |
| CTATCAAGATTCAGATCATA+TGG | + | tig0012398:45631-45650 | Msa1352000:intron | 30.0% | |
| TTTATGAGTATGTTTGGATC+AGG | + | tig0012398:45810-45829 | Msa1352000:intron | 30.0% | |
| GAAAGTCAACAAAATCATTG+TGG | - | tig0012398:45853-45872 | None:intergenic | 30.0% | |
| AACCGAACAATACATGTAAA+TGG | - | tig0012398:45948-45967 | None:intergenic | 30.0% | |
| !!! | TTTTGGTGTTGTAATGTCTC+TGG | - | tig0012398:45311-45330 | None:intergenic | 35.0% |
| TTACAACACCAAAACAAGCA+AGG | + | tig0012398:45317-45336 | Msa1352000:CDS | 35.0% | |
| TGTTTGGGGATATTGAAACT+AGG | + | tig0012398:45525-45544 | Msa1352000:intron | 35.0% | |
| TTTGAGTCGATATTGCATGT+TGG | - | tig0012398:45923-45942 | None:intergenic | 35.0% | |
| GGAGACACATCTTATATCAA+TGG | + | tig0012398:46136-46155 | Msa1352000:CDS | 35.0% | |
| ! | TCTTAAGGACAAACGTCTTT+TGG | + | tig0012398:46198-46217 | Msa1352000:CDS | 35.0% |
| ATTCACACACACATTAGAAC+CGG | - | tig0012398:46400-46419 | None:intergenic | 35.0% | |
| !!! | TTTTGGTGTTGTAATGTCTC+TGG | - | tig0012398:45311-45330 | None:intergenic | 35.0% |
| TTACAACACCAAAACAAGCA+AGG | + | tig0012398:45317-45336 | Msa1352000:CDS | 35.0% | |
| TGTTTGGGGATATTGAAACT+AGG | + | tig0012398:45525-45544 | Msa1352000:intron | 35.0% | |
| TTTGAGTCGATATTGCATGT+TGG | - | tig0012398:45923-45942 | None:intergenic | 35.0% | |
| GGAGACACATCTTATATCAA+TGG | + | tig0012398:46136-46155 | Msa1352000:CDS | 35.0% | |
| ! | TCTTAAGGACAAACGTCTTT+TGG | + | tig0012398:46198-46217 | Msa1352000:CDS | 35.0% |
| ATTCACACACACATTAGAAC+CGG | - | tig0012398:46400-46419 | None:intergenic | 35.0% | |
| !! | GAGCAGTGAACAATTGGTTT+TGG | - | tig0012398:45286-45305 | None:intergenic | 40.0% |
| ! | GTTGAAGTCCTTGCTTGTTT+TGG | - | tig0012398:45328-45347 | None:intergenic | 40.0% |
| CACTGTGAAAAAAACCCATC+AGG | - | tig0012398:45711-45730 | None:intergenic | 40.0% | |
| ATGCGAAGTTACATGTTCAG+AGG | - | tig0012398:45988-46007 | None:intergenic | 40.0% | |
| TTCGCATTGTTTGTGTGTTG+AGG | + | tig0012398:46001-46020 | Msa1352000:intron | 40.0% | |
| ! | AAGGACAAACGTCTTTTGGA+TGG | + | tig0012398:46202-46221 | Msa1352000:CDS | 40.0% |
| TCATTCGGATGTTAAACCTC+CGG | + | tig0012398:46378-46397 | Msa1352000:three_prime_UTR | 40.0% | |
| !! | GAGCAGTGAACAATTGGTTT+TGG | - | tig0012398:45286-45305 | None:intergenic | 40.0% |
| ! | GTTGAAGTCCTTGCTTGTTT+TGG | - | tig0012398:45328-45347 | None:intergenic | 40.0% |
| CACTGTGAAAAAAACCCATC+AGG | - | tig0012398:45711-45730 | None:intergenic | 40.0% | |
| ATGCGAAGTTACATGTTCAG+AGG | - | tig0012398:45988-46007 | None:intergenic | 40.0% | |
| TTCGCATTGTTTGTGTGTTG+AGG | + | tig0012398:46001-46020 | Msa1352000:intron | 40.0% | |
| ! | AAGGACAAACGTCTTTTGGA+TGG | + | tig0012398:46202-46221 | Msa1352000:CDS | 40.0% |
| TCATTCGGATGTTAAACCTC+CGG | + | tig0012398:46378-46397 | Msa1352000:three_prime_UTR | 40.0% | |
| !! | TGGTGTTGTAATGTCTCTGG+TGG | - | tig0012398:45308-45327 | None:intergenic | 45.0% |
| TGGGCTTACATCAGACATGA+GGG | - | tig0012398:45359-45378 | None:intergenic | 45.0% | |
| ATGGGCTTACATCAGACATG+AGG | - | tig0012398:45360-45379 | None:intergenic | 45.0% | |
| AAAAAAACCCATCAGGACGC+TGG | - | tig0012398:45704-45723 | None:intergenic | 45.0% | |
| GTATGTTTGGATCAGGACTC+TGG | + | tig0012398:45817-45836 | Msa1352000:intron | 45.0% | |
| !! | ATCAGGACTCTGGAATCACA+GGG | + | tig0012398:45827-45846 | Msa1352000:intron | 45.0% |
| ! | GCTTTGATGATTTGGCGACT+TGG | + | tig0012398:46299-46318 | Msa1352000:CDS | 45.0% |
| !! | TGGTGTTGTAATGTCTCTGG+TGG | - | tig0012398:45308-45327 | None:intergenic | 45.0% |
| TGGGCTTACATCAGACATGA+GGG | - | tig0012398:45359-45378 | None:intergenic | 45.0% | |
| ATGGGCTTACATCAGACATG+AGG | - | tig0012398:45360-45379 | None:intergenic | 45.0% | |
| AAAAAAACCCATCAGGACGC+TGG | - | tig0012398:45704-45723 | None:intergenic | 45.0% | |
| GTATGTTTGGATCAGGACTC+TGG | + | tig0012398:45817-45836 | Msa1352000:intron | 45.0% | |
| !! | ATCAGGACTCTGGAATCACA+GGG | + | tig0012398:45827-45846 | Msa1352000:intron | 45.0% |
| ! | GCTTTGATGATTTGGCGACT+TGG | + | tig0012398:46299-46318 | Msa1352000:CDS | 45.0% |
| CTGGTGGAGCAGTGAACAAT+TGG | - | tig0012398:45292-45311 | None:intergenic | 50.0% | |
| !! | GATCAGGACTCTGGAATCAC+AGG | + | tig0012398:45826-45845 | Msa1352000:intron | 50.0% |
| CACACACACATTAGAACCGG+AGG | - | tig0012398:46397-46416 | None:intergenic | 50.0% | |
| CTGGTGGAGCAGTGAACAAT+TGG | - | tig0012398:45292-45311 | None:intergenic | 50.0% | |
| !! | GATCAGGACTCTGGAATCAC+AGG | + | tig0012398:45826-45845 | Msa1352000:intron | 50.0% |
| CACACACACATTAGAACCGG+AGG | - | tig0012398:46397-46416 | None:intergenic | 50.0% | |
| TGGAACAGCCAGCGTCCTGA+TGG | + | tig0012398:45693-45712 | Msa1352000:intron | 60.0% | |
| GGAACAGCCAGCGTCCTGAT+GGG | + | tig0012398:45694-45713 | Msa1352000:intron | 60.0% | |
| TGGAACAGCCAGCGTCCTGA+TGG | + | tig0012398:45693-45712 | Msa1352000:intron | 60.0% | |
| GGAACAGCCAGCGTCCTGAT+GGG | + | tig0012398:45694-45713 | Msa1352000:intron | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0012398 | gene | 45257 | 46473 | 45257 | ID=Msa1352000;Name=Msa1352000 |
| tig0012398 | mRNA | 45257 | 46473 | 45257 | ID=Msa1352000-mRNA-1;Parent=Msa1352000;Name=Msa1352000-mRNA-1;_AED=0.11;_eAED=0.11;_QI=0|0|0.33|0.66|0|0.66|3|107|180 |
| tig0012398 | exon | 45257 | 45369 | 45257 | ID=Msa1352000-mRNA-1:exon:7957;Parent=Msa1352000-mRNA-1 |
| tig0012398 | exon | 45848 | 45995 | 45848 | ID=Msa1352000-mRNA-1:exon:7958;Parent=Msa1352000-mRNA-1 |
| tig0012398 | exon | 46085 | 46473 | 46085 | ID=Msa1352000-mRNA-1:exon:7959;Parent=Msa1352000-mRNA-1 |
| tig0012398 | CDS | 45257 | 45369 | 45257 | ID=Msa1352000-mRNA-1:cds;Parent=Msa1352000-mRNA-1 |
| tig0012398 | CDS | 45848 | 45995 | 45848 | ID=Msa1352000-mRNA-1:cds;Parent=Msa1352000-mRNA-1 |
| tig0012398 | CDS | 46085 | 46366 | 46085 | ID=Msa1352000-mRNA-1:cds;Parent=Msa1352000-mRNA-1 |
| tig0012398 | three_prime_UTR | 46367 | 46473 | 46367 | ID=Msa1352000-mRNA-1:three_prime_utr;Parent=Msa1352000-mRNA-1 |
| Gene Sequence |
| Protein sequence |
