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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0031310 | XP_013468890.1 | 97.051 | 1085 | 25 | 3 | 1 | 1079 | 1 | 1084 | 0.0 | 2177 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0031310 | sp|Q84W55|IP5PF_ARATH | 62.878 | 1091 | 367 | 11 | 16 | 1079 | 22 | 1101 | 0.0 | 1432 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0031310 | Msa0056450 | 0.804796 | 1.819242e-49 | -8.615850e-47 |
| Msa0031310 | Msa0078610 | 0.865258 | 6.726687e-65 | -8.615850e-47 |
| Msa0031310 | Msa0082440 | 0.812772 | 3.582878e-51 | -8.615850e-47 |
| Msa0031310 | Msa0171250 | 0.876556 | 1.271657e-68 | -8.615850e-47 |
| Msa0031310 | Msa0299060 | 0.809671 | 1.686340e-50 | -8.615850e-47 |
| Msa0031310 | Msa0340690 | 0.809456 | 1.875845e-50 | -8.615850e-47 |
| Msa0031310 | Msa0340710 | 0.806731 | 7.133027e-50 | -8.615850e-47 |
| Msa0031310 | Msa0388030 | -0.802023 | 6.827924e-49 | -8.615850e-47 |
| Msa0031310 | Msa0573040 | 0.813306 | 2.736814e-51 | -8.615850e-47 |
| Msa0031310 | Msa0661320 | 0.803603 | 3.222219e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0031310 | MtrunA17_Chr1g0189231 | 97.051 | 1085 | 25 | 3 | 1 | 1079 | 1 | 1084 | 0.0 | 2177 |
| Msa0031310 | MtrunA17_Chr6g0488541 | 58.708 | 1068 | 382 | 10 | 32 | 1048 | 69 | 1128 | 0.0 | 1294 |
| Msa0031310 | MtrunA17_Chr7g0263111 | 28.753 | 473 | 228 | 17 | 463 | 916 | 61 | 443 | 6.12e-43 | 163 |
| Msa0031310 | MtrunA17_Chr8g0375751 | 26.969 | 419 | 223 | 14 | 523 | 917 | 61 | 420 | 1.88e-35 | 140 |
| Msa0031310 | MtrunA17_Chr4g0054951 | 33.948 | 271 | 138 | 7 | 603 | 869 | 310 | 543 | 3.63e-34 | 139 |
| Msa0031310 | MtrunA17_Chr4g0054941 | 33.210 | 271 | 140 | 7 | 603 | 869 | 310 | 543 | 2.24e-33 | 137 |
| Msa0031310 | MtrunA17_Chr6g0479511 | 25.693 | 397 | 209 | 13 | 507 | 865 | 34 | 382 | 4.05e-33 | 132 |
| Msa0031310 | MtrunA17_Chr8g0382571 | 31.058 | 293 | 159 | 9 | 580 | 865 | 189 | 445 | 4.58e-33 | 134 |
| Msa0031310 | MtrunA17_Chr6g0452181 | 26.376 | 436 | 216 | 13 | 522 | 913 | 56 | 430 | 4.90e-33 | 134 |
| Msa0031310 | MtrunA17_Chr1g0201271 | 29.740 | 269 | 145 | 8 | 601 | 865 | 369 | 597 | 1.25e-32 | 135 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0031310 | AT1G65580.1 | 62.878 | 1091 | 367 | 11 | 16 | 1079 | 22 | 1101 | 0.0 | 1432 |
| Msa0031310 | AT2G43900.1 | 61.339 | 1001 | 363 | 8 | 68 | 1048 | 113 | 1109 | 0.0 | 1313 |
| Msa0031310 | AT2G43900.2 | 59.535 | 1033 | 362 | 9 | 68 | 1048 | 113 | 1141 | 0.0 | 1300 |
| Msa0031310 | AT1G05630.2 | 60.353 | 1019 | 375 | 9 | 68 | 1062 | 105 | 1118 | 0.0 | 1291 |
| Msa0031310 | AT1G05630.1 | 58.405 | 1053 | 375 | 10 | 68 | 1062 | 105 | 1152 | 0.0 | 1273 |
| Msa0031310 | AT2G31830.2 | 56.256 | 1031 | 420 | 9 | 72 | 1077 | 120 | 1144 | 0.0 | 1201 |
| Msa0031310 | AT2G31830.1 | 56.791 | 1016 | 408 | 9 | 72 | 1062 | 120 | 1129 | 0.0 | 1198 |
| Msa0031310 | AT1G65580.2 | 66.427 | 834 | 269 | 3 | 257 | 1079 | 2 | 835 | 0.0 | 1189 |
| Msa0031310 | AT1G05630.3 | 62.406 | 798 | 273 | 8 | 68 | 843 | 105 | 897 | 0.0 | 1045 |
| Msa0031310 | AT2G31830.3 | 59.292 | 791 | 295 | 8 | 72 | 841 | 120 | 904 | 0.0 | 962 |
Find 315 sgRNAs with CRISPR-Local
Find 709 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGAAACGCATCCCTGCC+TGG | 0.507732 | 1_1:+58035236 | Msa0031310:CDS |
| AAAATCTATTCATCTGACAG+AGG | 0.675320 | 1_1:+58029711 | Msa0031310:CDS |
| AAAATGCTATCAAGAGGTCC+TGG | 0.545545 | 1_1:-58032323 | None:intergenic |
| AAAATTCTGTCACACCAGGC+AGG | 0.533000 | 1_1:-58035250 | None:intergenic |
| AAACATTAGACTTCATGTTG+GGG | 0.649582 | 1_1:+58033313 | Msa0031310:CDS |
| AAATAGTCACTCACCTTAAT+TGG | 0.255905 | 1_1:-58037764 | None:intergenic |
| AAATGAAGGTCACATATTAT+AGG | 0.404304 | 1_1:-58038249 | None:intergenic |
| AAATGGAGAGACCGAGCGTT+TGG | 0.419384 | 1_1:-58027909 | None:intergenic |
| AAATTCTGTCACACCAGGCA+GGG | 0.567856 | 1_1:-58035249 | None:intergenic |
| AACAACAAGGCCAACATCTG+AGG | 0.646340 | 1_1:-58032477 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TCAATCACAATCACTTCTTA+TGG | + | chr1_1:58028666-58028685 | Msa0031310:CDS | 30.0% | |
| GCAACCTAAATCTAAGTTTA+TGG | + | chr1_1:58029371-58029390 | Msa0031310:intron | 30.0% | |
| ATGCTTATAGATGTTTATGG+AGG | + | chr1_1:58029423-58029442 | Msa0031310:intron | 30.0% | |
| AAGGAGGGGTTATAAAAATA+TGG | + | chr1_1:58029671-58029690 | Msa0031310:CDS | 30.0% | |
| GGTTATAAAAATATGGCCTT+GGG | + | chr1_1:58029678-58029697 | Msa0031310:CDS | 30.0% | |
| AAAATCTATTCATCTGACAG+AGG | + | chr1_1:58029711-58029730 | Msa0031310:CDS | 30.0% | |
| ATCAGATAATTCAAAGGCAA+AGG | + | chr1_1:58029846-58029865 | Msa0031310:CDS | 30.0% | |
| TATATTACTACCACTAAGAG+AGG | - | chr1_1:58029928-58029947 | None:intergenic | 30.0% | |
| CAATTCTTGACTTAGTAAAC+CGG | + | chr1_1:58030433-58030452 | Msa0031310:intron | 30.0% | |
| AATTCTTGACTTAGTAAACC+GGG | + | chr1_1:58030434-58030453 | Msa0031310:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_1 | gene | 58027848 | 58038391 | 58027848 | ID=Msa0031310;Name=Msa0031310 |
| chr1_1 | mRNA | 58027848 | 58038391 | 58027848 | ID=Msa0031310-mRNA-1;Parent=Msa0031310;Name=Msa0031310-mRNA-1;_AED=0.08;_eAED=0.08;_QI=155|1|1|1|0.90|0.83|12|479|1079 |
| chr1_1 | exon | 58027848 | 58028687 | 58027848 | ID=Msa0031310-mRNA-1:exon:17611;Parent=Msa0031310-mRNA-1 |
| chr1_1 | exon | 58029650 | 58029902 | 58029650 | ID=Msa0031310-mRNA-1:exon:17612;Parent=Msa0031310-mRNA-1 |
| chr1_1 | exon | 58031770 | 58032562 | 58031770 | ID=Msa0031310-mRNA-1:exon:17613;Parent=Msa0031310-mRNA-1 |
| chr1_1 | exon | 58032863 | 58032987 | 58032863 | ID=Msa0031310-mRNA-1:exon:17614;Parent=Msa0031310-mRNA-1 |
| chr1_1 | exon | 58033304 | 58033388 | 58033304 | ID=Msa0031310-mRNA-1:exon:17615;Parent=Msa0031310-mRNA-1 |
| chr1_1 | exon | 58034025 | 58034190 | 58034025 | ID=Msa0031310-mRNA-1:exon:17616;Parent=Msa0031310-mRNA-1 |
| chr1_1 | exon | 58034292 | 58034332 | 58034292 | ID=Msa0031310-mRNA-1:exon:17617;Parent=Msa0031310-mRNA-1 |
| chr1_1 | exon | 58034425 | 58034677 | 58034425 | ID=Msa0031310-mRNA-1:exon:17618;Parent=Msa0031310-mRNA-1 |
| chr1_1 | exon | 58035221 | 58035344 | 58035221 | ID=Msa0031310-mRNA-1:exon:17619;Parent=Msa0031310-mRNA-1 |
| chr1_1 | exon | 58036159 | 58036519 | 58036159 | ID=Msa0031310-mRNA-1:exon:17620;Parent=Msa0031310-mRNA-1 |
| chr1_1 | exon | 58037406 | 58037772 | 58037406 | ID=Msa0031310-mRNA-1:exon:17621;Parent=Msa0031310-mRNA-1 |
| chr1_1 | exon | 58037926 | 58038391 | 58037926 | ID=Msa0031310-mRNA-1:exon:17622;Parent=Msa0031310-mRNA-1 |
| chr1_1 | five_prime_UTR | 58027848 | 58028002 | 58027848 | ID=Msa0031310-mRNA-1:five_prime_utr;Parent=Msa0031310-mRNA-1 |
| chr1_1 | CDS | 58028003 | 58028687 | 58028003 | ID=Msa0031310-mRNA-1:cds;Parent=Msa0031310-mRNA-1 |
| chr1_1 | CDS | 58029650 | 58029902 | 58029650 | ID=Msa0031310-mRNA-1:cds;Parent=Msa0031310-mRNA-1 |
| chr1_1 | CDS | 58031770 | 58032562 | 58031770 | ID=Msa0031310-mRNA-1:cds;Parent=Msa0031310-mRNA-1 |
| chr1_1 | CDS | 58032863 | 58032987 | 58032863 | ID=Msa0031310-mRNA-1:cds;Parent=Msa0031310-mRNA-1 |
| chr1_1 | CDS | 58033304 | 58033388 | 58033304 | ID=Msa0031310-mRNA-1:cds;Parent=Msa0031310-mRNA-1 |
| chr1_1 | CDS | 58034025 | 58034190 | 58034025 | ID=Msa0031310-mRNA-1:cds;Parent=Msa0031310-mRNA-1 |
| chr1_1 | CDS | 58034292 | 58034332 | 58034292 | ID=Msa0031310-mRNA-1:cds;Parent=Msa0031310-mRNA-1 |
| chr1_1 | CDS | 58034425 | 58034677 | 58034425 | ID=Msa0031310-mRNA-1:cds;Parent=Msa0031310-mRNA-1 |
| chr1_1 | CDS | 58035221 | 58035344 | 58035221 | ID=Msa0031310-mRNA-1:cds;Parent=Msa0031310-mRNA-1 |
| chr1_1 | CDS | 58036159 | 58036519 | 58036159 | ID=Msa0031310-mRNA-1:cds;Parent=Msa0031310-mRNA-1 |
| chr1_1 | CDS | 58037406 | 58037759 | 58037406 | ID=Msa0031310-mRNA-1:cds;Parent=Msa0031310-mRNA-1 |
| chr1_1 | three_prime_UTR | 58037760 | 58037772 | 58037760 | ID=Msa0031310-mRNA-1:three_prime_utr;Parent=Msa0031310-mRNA-1 |
| chr1_1 | three_prime_UTR | 58037926 | 58038391 | 58037926 | ID=Msa0031310-mRNA-1:three_prime_utr;Parent=Msa0031310-mRNA-1 |
| Gene Sequence |
>Msa0031310 ATGGATCCACTTCACCAAAACGACGCTTCTTCATCTTTTCCACTGTCGTCTACTCCTCAACAACGCACTTTCTTATATTCACGTTCCTCTTCTTCTTCTTCCAACGACAACGACGACGTTTCATCCTCCAATTCTATTCATTCCACCAACCGCCGTCTCGATTGCATGCTCCAATTCCTCGACCGTAAACTCACTATCTCCGACCACCTCCCTCTCCCTGAATTCATCGCCAAAGGCGGCGGTGCCGGAATCTTCAAACCTCCTCTCCGCGCCGCCGTACATCCTTCCCGTCCTCCTTCTCTCGAATTACGTCCCCATCCCTTACGCGAGACTCAGATTGGACGGTTTTTACGCACCATTGTTGCGACCGAGTCGCAATTATGGTCTGCGACTGAACGTGGACTACGGTTCTGGAATTTTAAAGATCTGTATGCGTCGTGGTACGGTGGAGAAGTAGGTGGTGTGAGGAGTGGTGATGAAGAGAGTGCACCGTTTCGTGAATCGGTTTGGACTTCGCCGGCGATTTGTTTGGTTGCGGATGAAGGGAATAGGTTGGTGTGGAGTGGACATAGAGATGGGAAGATTCGCTGTTGGTATATGGATTCTCAGAATTCCGATTTTAATGAAAGATTATCTTGGCAAGCTCATCGTGGACCTGTTCTTTCAATCACAATCACTTCTTATGGGGATCTGTGGTCGGGTTCAGAAGGAGGGGTTATAAAAATATGGCCTTGGGAGGCTGTTGAAAAATCTATTCATCTGACAGAGGAGGAAAGGCACAAGGCTGTCATATTCATCGAGAGATCCTACGTTGACTTGAGGAGCCAGCTATCTACAAATGGCTACAATAACATGCTAACTTCAGATATAAAGTACTTAGTATCAGATAATTCAAAGGCAAAGGTGTGGAGTGCTGGGTATTTTTCATATGCTTTATGGGATGCTCGTACAAGAGAGTTGTTGAAAGTTTTCAATTCAGATGGCCAAATGGAGAATCGATCAGACTTGCCTTCAATGCAAGACTTTCCGGCTGACCTTGTTTCAAGTTCTAGGAAAGACAGAAGCCAAAGTTCCATTGGGTTCTTTCAGCGCTCACGTAATGCCATAATGGGGGCAGCCGATGCTGTTCGCCGAGTTGCAGCAAAGGGAGCCTTTGGAGATGAGAATCGGAGAACTGAAGCACTTGTAGTAACAATTGATGGAATGATTTGGACAGGATATTCAAGTGGCTTGCTGGTGCAATGGGATGGAAATGGCAATCGCATACAGGATTTTATTTACCACCCATTTGCTGTTCAATGTTTTTGTACTTATGGAATGCAAATTTGGGTAGGTTATGTGTCTGGCATTGTCCAGGTATTGGACCTGAAGGGTAACCTGATAGGGGGTTGGGTGGCTCATAGCTGTCCAGTTGTAAAAATGACAGTTGGAGTTGGCTATGTATTCACATTGGCTAACCACGGTGGCATACGAGGATGGAACATCACCTCTCCAGGACCTCTTGATAGCATTTTGTGTTCAGAATTGGGCGGCAAAGAATTTTTATATACTAAAATAGAAAACATAAAGATCTTGAGTGGCACTTGGAATGTTGGACAAGGAAAAGCATCTCAAGATTCCCTTACTTCATGGCTAGGTTCTGTGGCCTCAGATGTTGGCCTTGTTGTTGTTGGGTTGCAAGAGGTTGAAATGGGCGCTGGATTTCTTGCAATGTCTGCAGCTAAAGAAACTGTAGGACTGGAGGGTAGTTCTGCTGGGCAGTGGTGGCTGGATATGATAGACAAAACACTGGATGAAGGTTCAACATTTAAACGAATTGGATCCAGGCAACTTGCAGGCTTGGTCATTGCTGTGTGGGTTAAAACAAACATTAGACTTCATGTTGGGGATGTTGAGGCGGCAGCAGTTCCATGTGGCTTTGGACGTGCTATTGGAAATAAGGGAGCTGTTGCTTTGAGGGTTAGAGTGTATGATCGGATTATGTGCTTTGTTAATTGTCACTTTGCTGCACATTTAGATGCAGTTGGTCGTCGCAATTCAGATTTTGATTATGTATACCGAACAATGTCCTTTAGTCGACCAACAAACCTCTTAAATACAACACCTGCTGGAACTTCAGCTTCTATTCCAATGTTTCGTGGTACAAATCCTGCAGAAGGGATACCTGAGTTATCTGAGGCAGACATGATTGTATTTCTTGGTGATTTGAACTATCGTCTTGATGACATTTCGTATGATGAAGCAAGAGATTTTGTATCTCAAAGATGCTTTGATTGGCTTAGAGAAAGGGATCAGCTTCGAGCTGAAATGGAAGCTGGGAATGCCTTCCAAGGAATGCGTGAAGCAGTAATAACATTTCCTCCCACATACAAGTTTGAACGACACCAAGCTGGTTTGGCAGGGTATGACTCTGGTGAAAAGAAACGCATCCCTGCCTGGTGTGACAGAATTTTGTATCGTGATAGTCGCTCTTCTTTGATTGCTGAATGCAATTTGGAGTACCCTGTTGTCTCTTCAGTATTGCAGTACGAAGCCTGCATGGATGTCACAGATAGTGACCACAAGCCTGTGCGCTGCATCTTTTCTACAGATATTGCTCGAGTAGATGAACCAATACGGAGACAGGAGTTTGGAGAAATTCTCGAGTCAAATGAGAAAATAAAATGTCTTCTGAAAGAATTGTACAAGATTCCTGAAACTATCATAAGTACAAACAACATAATTCTTCAAAACCAGGACACATTAATTTTGCGTATTACTAATAAAAGTACAGAAGACAATGCTTTGTTCGAAATAATTTGCGAAGGGCAGACTACTGTACTGGAGGATCAGAAGGCAACAAACCATCAGTTGAGAGGTTCTTTTGGATTGCCTAGGTGGCTTGAGGTAAGTCCTGCAACTGGTATTATAAGACCAGATCAGATTATTGAGGTATCAGTGCATCATGAGGAATTTCAGACTCAGGAAGAGTTTGTTGATGGTGTTGTACAAAACTCTTGGTGTGAAGACTCCAGAGACAAGGAAGCAATTTTGATTGTTAAGGTGCATGGGAATTACGCTATTCAGACAAGAAATCACCGAGTGCGTGTTCACCACTGTTATTCATCCAAGAAAAACCAATTGACTCAACCAAACGGCTCCAGGCACGTCCAAGGAAGTGTACTTCACCGATCTGATTTTCAACGTTTGAGCAATTCATTTGATGTGGTTGACCAGCTGCATAAATTGCATAGCCCTTGA |
| Protein sequence |
>Msa0031310 MDPLHQNDASSSFPLSSTPQQRTFLYSRSSSSSSNDNDDVSSSNSIHSTNRRLDCMLQFLDRKLTISDHLPLPEFIAKGGGAGIFKPPLRAAVHPSRPPSLELRPHPLRETQIGRFLRTIVATESQLWSATERGLRFWNFKDLYASWYGGEVGGVRSGDEESAPFRESVWTSPAICLVADEGNRLVWSGHRDGKIRCWYMDSQNSDFNERLSWQAHRGPVLSITITSYGDLWSGSEGGVIKIWPWEAVEKSIHLTEEERHKAVIFIERSYVDLRSQLSTNGYNNMLTSDIKYLVSDNSKAKVWSAGYFSYALWDARTRELLKVFNSDGQMENRSDLPSMQDFPADLVSSSRKDRSQSSIGFFQRSRNAIMGAADAVRRVAAKGAFGDENRRTEALVVTIDGMIWTGYSSGLLVQWDGNGNRIQDFIYHPFAVQCFCTYGMQIWVGYVSGIVQVLDLKGNLIGGWVAHSCPVVKMTVGVGYVFTLANHGGIRGWNITSPGPLDSILCSELGGKEFLYTKIENIKILSGTWNVGQGKASQDSLTSWLGSVASDVGLVVVGLQEVEMGAGFLAMSAAKETVGLEGSSAGQWWLDMIDKTLDEGSTFKRIGSRQLAGLVIAVWVKTNIRLHVGDVEAAAVPCGFGRAIGNKGAVALRVRVYDRIMCFVNCHFAAHLDAVGRRNSDFDYVYRTMSFSRPTNLLNTTPAGTSASIPMFRGTNPAEGIPELSEADMIVFLGDLNYRLDDISYDEARDFVSQRCFDWLRERDQLRAEMEAGNAFQGMREAVITFPPTYKFERHQAGLAGYDSGEKKRIPAWCDRILYRDSRSSLIAECNLEYPVVSSVLQYEACMDVTDSDHKPVRCIFSTDIARVDEPIRRQEFGEILESNEKIKCLLKELYKIPETIISTNNIILQNQDTLILRITNKSTEDNALFEIICEGQTTVLEDQKATNHQLRGSFGLPRWLEVSPATGIIRPDQIIEVSVHHEEFQTQEEFVDGVVQNSWCEDSRDKEAILIVKVHGNYAIQTRNHRVRVHHCYSSKKNQLTQPNGSRHVQGSVLHRSDFQRLSNSFDVVDQLHKLHSP* |
