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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1141970 | RHN40067.1 | 82.643 | 628 | 109 | 0 | 1 | 628 | 29 | 656 | 0.0 | 1070 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1141970 | sp|Q9LHA8|HS704_ARATH | 65.238 | 630 | 214 | 4 | 1 | 627 | 1 | 628 | 0.0 | 832 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1141970 | A0A396GMY3 | 82.643 | 628 | 109 | 0 | 1 | 628 | 29 | 656 | 0.0 | 1070 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0138360 | Msa1141970 | 0.804905 | 1.725536e-49 | -8.615850e-47 |
| Msa0147980 | Msa1141970 | 0.807259 | 5.516804e-50 | -8.615850e-47 |
| Msa0527190 | Msa1141970 | 0.811470 | 6.891479e-51 | -8.615850e-47 |
| Msa1053640 | Msa1141970 | 0.822256 | 2.610743e-53 | -8.615850e-47 |
| Msa1141970 | Msa1371520 | 0.804926 | 1.708851e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1141970 | MtrunA17_Chr8g0350731 | 82.643 | 628 | 109 | 0 | 1 | 628 | 29 | 656 | 0.0 | 1070 |
| Msa1141970 | MtrunA17_Chr7g0223711 | 81.583 | 619 | 113 | 1 | 1 | 618 | 1 | 619 | 0.0 | 1050 |
| Msa1141970 | MtrunA17_Chr7g0223631 | 82.039 | 618 | 97 | 2 | 1 | 618 | 1 | 604 | 0.0 | 1021 |
| Msa1141970 | MtrunA17_Chr7g0223751 | 78.435 | 626 | 135 | 0 | 1 | 626 | 1 | 626 | 0.0 | 1020 |
| Msa1141970 | MtrunA17_Chr7g0223701 | 77.445 | 634 | 134 | 3 | 1 | 625 | 1 | 634 | 0.0 | 999 |
| Msa1141970 | MtrunA17_Chr7g0223621 | 76.797 | 612 | 142 | 0 | 1 | 612 | 1 | 612 | 0.0 | 978 |
| Msa1141970 | MtrunA17_Chr7g0223731 | 75.122 | 615 | 153 | 0 | 1 | 615 | 1 | 615 | 0.0 | 964 |
| Msa1141970 | MtrunA17_Chr7g0223031 | 74.510 | 612 | 156 | 0 | 1 | 612 | 1 | 612 | 0.0 | 958 |
| Msa1141970 | MtrunA17_Chr7g0248131 | 74.359 | 624 | 155 | 4 | 1 | 619 | 1 | 624 | 0.0 | 933 |
| Msa1141970 | MtrunA17_Chr7g0248151 | 74.074 | 621 | 158 | 2 | 1 | 618 | 1 | 621 | 0.0 | 921 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1141970 | AT3G12580.1 | 65.238 | 630 | 214 | 4 | 1 | 627 | 1 | 628 | 0.0 | 832 |
| Msa1141970 | AT5G02500.1 | 64.239 | 618 | 216 | 4 | 1 | 615 | 1 | 616 | 0.0 | 812 |
| Msa1141970 | AT5G02490.1 | 63.916 | 618 | 218 | 4 | 1 | 615 | 1 | 616 | 0.0 | 807 |
| Msa1141970 | AT3G09440.1 | 64.401 | 618 | 215 | 4 | 1 | 615 | 1 | 616 | 0.0 | 803 |
| Msa1141970 | AT3G09440.4 | 64.401 | 618 | 215 | 4 | 1 | 615 | 1 | 616 | 0.0 | 803 |
| Msa1141970 | AT3G09440.2 | 64.401 | 618 | 215 | 4 | 1 | 615 | 1 | 616 | 0.0 | 803 |
| Msa1141970 | AT3G09440.3 | 64.401 | 618 | 215 | 4 | 1 | 615 | 1 | 616 | 0.0 | 803 |
| Msa1141970 | AT1G56410.1 | 63.124 | 621 | 222 | 5 | 1 | 618 | 1 | 617 | 0.0 | 791 |
| Msa1141970 | AT1G16030.1 | 62.802 | 621 | 225 | 5 | 1 | 618 | 1 | 618 | 0.0 | 789 |
| Msa1141970 | AT5G28540.1 | 53.135 | 606 | 273 | 8 | 7 | 607 | 35 | 634 | 0.0 | 626 |
Find 156 sgRNAs with CRISPR-Local
Find 244 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGGAAGACTATCAAGAG+AGG | 0.655033 | 7_4:+15756910 | Msa1141970:CDS |
| AAAGATGCAGGTGATATTGC+TGG | 0.430331 | 7_4:+15755870 | Msa1141970:CDS |
| AAAGCATTGCAAATCAACAA+GGG | 0.678487 | 7_4:+15753834 | Msa1141970:five_prime_UTR |
| AAATAAGGTCTTTGATGTCA+AGG | 0.548086 | 7_4:+15756040 | Msa1141970:CDS |
| AAATATGAGGGAGTTGCAAT+CGG | 0.516973 | 7_4:+15755172 | Msa1141970:CDS |
| AACAGTGAGAACAACTTCCT+CGG | 0.580816 | 7_4:+15756746 | Msa1141970:CDS |
| AACCCAACCAACACTGTCTT+TGG | 0.279913 | 7_4:+15755361 | Msa1141970:CDS |
| AAGAACAAAGAGGATATTAG+TGG | 0.402789 | 7_4:+15756143 | Msa1141970:CDS |
| AAGCATTCCCTTAATCACTA+AGG | 0.490569 | 7_4:-15753672 | None:intergenic |
| AAGGGGAAAAGTTTGATTGA+TGG | 0.409606 | 7_4:+15757118 | Msa1141970:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GTGATAATCCTTAGTGATTA+AGG | + | chr7_4:15753664-15753683 | Msa1141970:five_prime_UTR | 30.0% | |
| TTGGTGAAATTGAATTCAAG+AGG | + | chr7_4:15753804-15753823 | Msa1141970:five_prime_UTR | 30.0% | |
| TCTAGTCTCAATTGTCTTAT+AGG | - | chr7_4:15754243-15754262 | None:intergenic | 30.0% | |
| GTGTAAAAAGGTTGAATGAT+TGG | - | chr7_4:15754299-15754318 | None:intergenic | 30.0% | |
| AACAAGTAGTAGAATAGCTT+CGG | - | chr7_4:15754583-15754602 | None:intergenic | 30.0% | |
| AAAAGATTATCGTATCCACA+TGG | - | chr7_4:15754655-15754674 | None:intergenic | 30.0% | |
| AAATACTTCTTGTACTCACT+CGG | + | chr7_4:15754727-15754746 | Msa1141970:intron | 30.0% | |
| AATAGTAGTCACATTGAAGA+AGG | + | chr7_4:15754881-15754900 | Msa1141970:intron | 30.0% | |
| ACGATGGCAAAAAAATATGA+GGG | + | chr7_4:15755160-15755179 | Msa1141970:exon | 30.0% | |
| TAAATTACCAAAGACAGTGT+TGG | - | chr7_4:15755371-15755390 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_4 | gene | 15753555 | 15757515 | 15753555 | ID=Msa1141970;Name=Msa1141970 |
| chr7_4 | mRNA | 15753555 | 15757515 | 15753555 | ID=Msa1141970-mRNA-1;Parent=Msa1141970;Name=Msa1141970-mRNA-1;_AED=0.15;_eAED=0.15;_QI=508|1|1|1|0.5|0.33|3|248|629 |
| chr7_4 | exon | 15753555 | 15753953 | 15753555 | ID=Msa1141970-mRNA-1:exon:3584;Parent=Msa1141970-mRNA-1 |
| chr7_4 | exon | 15755054 | 15755382 | 15755054 | ID=Msa1141970-mRNA-1:exon:3585;Parent=Msa1141970-mRNA-1 |
| chr7_4 | exon | 15755598 | 15757515 | 15755598 | ID=Msa1141970-mRNA-1:exon:3586;Parent=Msa1141970-mRNA-1 |
| chr7_4 | five_prime_UTR | 15753555 | 15753953 | 15753555 | ID=Msa1141970-mRNA-1:five_prime_utr;Parent=Msa1141970-mRNA-1 |
| chr7_4 | five_prime_UTR | 15755054 | 15755162 | 15755054 | ID=Msa1141970-mRNA-1:five_prime_utr;Parent=Msa1141970-mRNA-1 |
| chr7_4 | CDS | 15755163 | 15755382 | 15755163 | ID=Msa1141970-mRNA-1:cds;Parent=Msa1141970-mRNA-1 |
| chr7_4 | CDS | 15755598 | 15757267 | 15755598 | ID=Msa1141970-mRNA-1:cds;Parent=Msa1141970-mRNA-1 |
| chr7_4 | three_prime_UTR | 15757268 | 15757515 | 15757268 | ID=Msa1141970-mRNA-1:three_prime_utr;Parent=Msa1141970-mRNA-1 |
| Gene Sequence |
>Msa1141970 ATGGCAAAAAAATATGAGGGAGTTGCAATCGGAATTGACCTTGGCACGACTTACTCGTGTGTTGGAGTATGGCATGAGCAGAACGATCGTGTGGAAATTATTCACAATGATCAAGGAAACAAAACAACACCTTCTTGTGTTGCTTTCACTAATTCCCAAAGGCTGATTGGTGATGCTGCCAAAAATCAGGCTTCTTCAAACCCAACCAACACTGTCTTTGATGCAAAGAGGTTAATTGGAAGGAAATATAGTGATTCCATTGTTCAGAATGATCTACTGTTGTGGCCCTTTAAGGTCATATCCGGTGCTGATGACAAACCGACAATTCTTGTGAACTACAAGGGTGAGGAAAAGCACTTTGTTGCTGAAGAAATATCATCTGTGATCCTCTCACAGATGCAAGAGATTGCAGAGGCATTTTTGGAGTCACCTGTTAAGAATGCAGTGATTACTGTACCTGCTTATTTCAATGATTCACAACGAAGAGCCACTAAAGATGCAGGTGATATTGCTGGTCTCAATGTAATGCGGATAATAAACGAACCGACTGCGGCGGCTCTTGCATATGGCCTTCAAAAGAGAGCTAATTGTGTTGATAAGAGAAATATTTTTATCTTTGACATTGGCGGTGGAACTTTTGATGTGTCTATTCTTACAATAAAAAATAAGGTCTTTGATGTCAAGGCCACTGCTGGAGACACTCACCTAGGCGGTGAAGACTTTGATAACAGAATGGTGAATCACTTTGTCAAGGAGTTTAAGAGGAAGAACAAAGAGGATATTAGTGGGAACCCAAAAGCCTTGAGGAGGTTGAGAACTGCCTGTGAGAGGGCAAAAAGGACACTTTCATACGACACTGAGGCCACAATTGACCTAGATGCTATATATCAAGGTATTGACTTTTGTTCATCAATCACTCGGGCCAAGTTTGAGCAATTGAATATGGATCTCTTTGAAAAGTGTATGGATACTGTTAATAGTTGTCTTGCTGATGCTAAGATGGACAGGGGTAGTGTAGATGACATTGTCCTTGTTGGTGGCTCTTCTAGGATTCCCAAAGTGAAGCAGCTATTGCAAGACTTTTTCAAGGGAAAGGAATTGTGCAAAAGCATCAACCCTGATGAGGCTGTTGCTTATGGTGCAGCTGTTCAGGCTGCTTTGCTTTGCGAAGGCATTAAGAATGTTCCAAATTTGGTACTGCAAGATGTTACCCCATTGTCTCTAGGTAAGGCAATAAAAGGAGATATCATGGATGTTGTGATTCCCAGGAACTCGTCTATTCCTGTCAAGAAGACAAGAGAATATGTTACAACTGAAGATAACCTATCCAGTATTTTCATTTGGGTTTATGAGGGTGAAAGATCAATGAACAGTGAGAACAACTTCCTCGGTTTGTTTGAGCTCCCGGTTTCACGTGCACCTCGCGGCCTTCCGATAAAAGTTTGCTTTGCAATAGATGCTGATGGAATATTAAATGTCTCTGCAGTGGAAGAAAAAAGTGGTAATAAGAAAGACATTACAATTATGAATGAAAAAGGAAGACTATCAAGAGAGGAAATTGGGAGAATGATTCAGGAAGCTGACAATTTCAAGGCTCAAGATATGATGTTCAGAAAGAAAGTCAAAGCAGTCAATGCTTTGGATGATTATCTTTACAATGTGAGGAAAATAATGAAGGATAATATGGCCAGTTCCAAGCTCGCTCCTTTAGACAAAGTGAAGATCAATTCTGCAATGATAAAGGGGAAAAGTTTGATTGATGGCAACCAGAAGGAAGATACGTCTGTATTTGTAGAATTTTTGAAGGAGCTTGAGAGCATCTCTGAGTCTGCTATGAACAAGATCAATAAAGGTTACTCTGATGAGGAAAGTGATTCGGGCTCTGATTGA |
| Protein sequence |
>Msa1141970 MAKKYEGVAIGIDLGTTYSCVGVWHEQNDRVEIIHNDQGNKTTPSCVAFTNSQRLIGDAAKNQASSNPTNTVFDAKRLIGRKYSDSIVQNDLLLWPFKVISGADDKPTILVNYKGEEKHFVAEEISSVILSQMQEIAEAFLESPVKNAVITVPAYFNDSQRRATKDAGDIAGLNVMRIINEPTAAALAYGLQKRANCVDKRNIFIFDIGGGTFDVSILTIKNKVFDVKATAGDTHLGGEDFDNRMVNHFVKEFKRKNKEDISGNPKALRRLRTACERAKRTLSYDTEATIDLDAIYQGIDFCSSITRAKFEQLNMDLFEKCMDTVNSCLADAKMDRGSVDDIVLVGGSSRIPKVKQLLQDFFKGKELCKSINPDEAVAYGAAVQAALLCEGIKNVPNLVLQDVTPLSLGKAIKGDIMDVVIPRNSSIPVKKTREYVTTEDNLSSIFIWVYEGERSMNSENNFLGLFELPVSRAPRGLPIKVCFAIDADGILNVSAVEEKSGNKKDITIMNEKGRLSREEIGRMIQEADNFKAQDMMFRKKVKAVNALDDYLYNVRKIMKDNMASSKLAPLDKVKINSAMIKGKSLIDGNQKEDTSVFVEFLKELESISESAMNKINKGYSDEESDSGSD* |
