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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1056980 | XP_039683162.1 | 85.981 | 107 | 13 | 1 | 1 | 105 | 115 | 221 | 2.89e-55 | 185 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1056980 | sp|Q6NWL4|CNOT9_DANRE | 66.304 | 92 | 31 | 0 | 2 | 93 | 108 | 199 | 4.62e-36 | 128 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1056980 | A0A396GV60 | 92.708 | 96 | 5 | 1 | 1 | 94 | 115 | 210 | 1.39e-53 | 180 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa1056980 | TR | Rcd1-like |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1056980 | MtrunA17_Chr7g0224601 | 92.708 | 96 | 5 | 1 | 1 | 94 | 115 | 210 | 2.67e-57 | 180 |
| Msa1056980 | MtrunA17_Chr1g0177151 | 54.887 | 133 | 50 | 2 | 1 | 131 | 119 | 243 | 2.33e-47 | 153 |
| Msa1056980 | MtrunA17_Chr6g0477171 | 71.277 | 94 | 27 | 0 | 1 | 94 | 109 | 202 | 1.96e-42 | 140 |
| Msa1056980 | MtrunA17_Chr5g0444621 | 67.290 | 107 | 33 | 1 | 1 | 105 | 105 | 211 | 1.58e-41 | 138 |
| Msa1056980 | MtrunA17_Chr3g0099561 | 53.383 | 133 | 52 | 2 | 1 | 131 | 111 | 235 | 3.87e-40 | 135 |
| Msa1056980 | MtrunA17_Chr8g0392781 | 43.114 | 167 | 51 | 3 | 1 | 131 | 123 | 281 | 8.09e-35 | 123 |
| Msa1056980 | MtrunA17_Chr5g0444631 | 88.095 | 42 | 5 | 0 | 1 | 42 | 15 | 56 | 5.88e-21 | 80.1 |
| Msa1056980 | MtrunA17_Chr3g0083821 | 65.385 | 52 | 18 | 0 | 1 | 52 | 79 | 130 | 3.50e-16 | 69.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1056980 | AT3G20800.1 | 66.000 | 100 | 32 | 1 | 1 | 98 | 124 | 223 | 1.18e-38 | 132 |
| Msa1056980 | AT5G12980.1 | 50.376 | 133 | 56 | 2 | 1 | 131 | 120 | 244 | 1.23e-36 | 127 |
| Msa1056980 | AT2G32550.1 | 40.217 | 92 | 54 | 1 | 3 | 93 | 50 | 141 | 1.60e-16 | 73.2 |
| Msa1056980 | AT2G32550.3 | 40.217 | 92 | 54 | 1 | 3 | 93 | 105 | 196 | 3.00e-16 | 73.2 |
| Msa1056980 | AT2G32550.2 | 40.217 | 92 | 54 | 1 | 3 | 93 | 144 | 235 | 4.92e-16 | 73.2 |
Find 21 sgRNAs with CRISPR-Local
Find 92 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TAGCCCAATTTGAGCATTTA+AGG | 0.127092 | 7_2:-36190028 | Msa1056980:CDS |
| CAAGCCTTAAATGCTCAAAT+TGG | 0.232859 | 7_2:+36190024 | None:intergenic |
| AAGGAAATCTATGCTTTCTT+TGG | 0.255899 | 7_2:+36189319 | None:intergenic |
| AATAGATAAACTAACAGTTT+TGG | 0.307053 | 7_2:+36189238 | None:intergenic |
| CTTGCTAGTCTTGGAGTCAT+TGG | 0.399485 | 7_2:-36190005 | Msa1056980:CDS |
| CATTTAAGGCTTGCTAGTCT+TGG | 0.414086 | 7_2:-36190014 | Msa1056980:CDS |
| CTAACTCGCTTGTCGTTTGA+AGG | 0.424446 | 7_2:+36190048 | None:intergenic |
| TCGCTTGTCGTTTGAAGGAA+TGG | 0.449153 | 7_2:+36190053 | None:intergenic |
| TGCCTACGCAGCATGGAAAT+CGG | 0.460606 | 7_2:-36189272 | Msa1056980:CDS |
| AAAATTATGTCAGATGATGA+TGG | 0.481246 | 7_2:-36189059 | Msa1056980:CDS |
| AAGCCTTAAATGCTCAAATT+GGG | 0.502413 | 7_2:+36190025 | None:intergenic |
| GATGGTTTGATTTATGTTTG+TGG | 0.509876 | 7_2:-36189041 | Msa1056980:CDS |
| TCTTGGAGTCATTGGTGCAT+TGG | 0.530074 | 7_2:-36189997 | Msa1056980:CDS |
| GAATTATCTCACTTCTAAGA+AGG | 0.538844 | 7_2:+36189300 | None:intergenic |
| TCCACTATGCCTACGCAGCA+TGG | 0.546502 | 7_2:-36189279 | Msa1056980:CDS |
| TCCATGCTGCGTAGGCATAG+TGG | 0.580220 | 7_2:+36189278 | None:intergenic |
| TGCCGATTTCCATGCTGCGT+AGG | 0.604124 | 7_2:+36189270 | None:intergenic |
| AGTCATTGGTGCATTGGTGA+AGG | 0.613240 | 7_2:-36189991 | Msa1056980:intron |
| AGTTTGATCAATTGATGTGA+AGG | 0.628164 | 7_2:+36188956 | None:intergenic |
| AACATGGTATTGGAAAGTGT+TGG | 0.637520 | 7_2:-36188986 | Msa1056980:CDS |
| TGAGACAAAAGAGAATAACA+TGG | 0.703854 | 7_2:+36188926 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTAAAGTTACTAATAAAT+TGG | + | chr7_2:36190664-36190683 | None:intergenic | 10.0% |
| !!! | ATTATTTTTATAATGTTCTT+AGG | - | chr7_2:36190764-36190783 | Msa1056980:intron | 10.0% |
| !!! | TTATTTTTATAATGTTCTTA+GGG | - | chr7_2:36190765-36190784 | Msa1056980:intron | 10.0% |
| !! | AAAATACATATTATGAATTT+GGG | - | chr7_2:36190888-36190907 | Msa1056980:intron | 10.0% |
| !! | GAAATTATTATAATTAACAA+AGG | + | chr7_2:36191048-36191067 | None:intergenic | 10.0% |
| !!! | TACTATTGAATTATTTTTAC+AGG | - | chr7_2:36188970-36188989 | Msa1056980:CDS | 15.0% |
| !! | TTCAAAAGTTAAAAAAAACA+AGG | + | chr7_2:36189254-36189273 | None:intergenic | 15.0% |
| !! | TTGAAAACATAAACATAAAT+TGG | + | chr7_2:36189326-36189345 | None:intergenic | 15.0% |
| !! | ATTGAAATCAATAAACATAT+TGG | + | chr7_2:36189627-36189646 | None:intergenic | 15.0% |
| !!! | CTTGATGTTAATAATTTTTA+TGG | - | chr7_2:36190490-36190509 | Msa1056980:intron | 15.0% |
| !! | AGATAGTTTATAAAATAACT+AGG | + | chr7_2:36190700-36190719 | None:intergenic | 15.0% |
| !!! | ATTCATAATATGTATTTTCA+AGG | + | chr7_2:36190886-36190905 | None:intergenic | 15.0% |
| !! | GAAAATACATATTATGAATT+TGG | - | chr7_2:36190887-36190906 | Msa1056980:intron | 15.0% |
| !!! | AAGATTCTTTAAAAAATAAG+TGG | + | chr7_2:36190976-36190995 | None:intergenic | 15.0% |
| !! | TAACAAAGGAAAAATAAATA+TGG | + | chr7_2:36191034-36191053 | None:intergenic | 15.0% |
| !! | AGAAAAAGTTATTATGCATT+TGG | - | chr7_2:36189160-36189179 | Msa1056980:intron | 20.0% |
| !!! | TTTTTTTAAAATTGTCCAAG+AGG | - | chr7_2:36189461-36189480 | Msa1056980:intron | 20.0% |
| !! | AGGAATGGATAAAAATATAA+AGG | + | chr7_2:36190354-36190373 | None:intergenic | 20.0% |
| !! | ACTCATAACAAAATAAGAAA+AGG | - | chr7_2:36190517-36190536 | Msa1056980:intron | 20.0% |
| !! | AGTAAACTAAATATTCACTA+CGG | + | chr7_2:36190823-36190842 | None:intergenic | 20.0% |
| !!! | TCTTTAAAAAATAAGTGGTT+AGG | + | chr7_2:36190971-36190990 | None:intergenic | 20.0% |
| !!! | AATAGATAAACTAACAGTTT+TGG | + | chr7_2:36191184-36191203 | None:intergenic | 20.0% |
| !! | AAGACTCTGTAAAAATAAAT+TGG | + | chr7_2:36191219-36191238 | None:intergenic | 20.0% |
| !! | TTCTTTATATGAATTTGACT+TGG | - | chr7_2:36191239-36191258 | Msa1056980:intron | 20.0% |
| !! | GAATAGAAAAAAAATTCAGA+AGG | + | chr7_2:36191274-36191293 | None:intergenic | 20.0% |
| ! | CCATAAGAATTCCATAATAA+AGG | + | chr7_2:36188950-36188969 | None:intergenic | 25.0% |
| ! | CCTTTATTATGGAATTCTTA+TGG | - | chr7_2:36188947-36188966 | Msa1056980:CDS | 25.0% |
| !! | TGTATGTGTCTTAATTTTAG+TGG | - | chr7_2:36189135-36189154 | Msa1056980:intron | 25.0% |
| ! | AAATTGGTGAAAGAATGAAA+CGG | + | chr7_2:36189310-36189329 | None:intergenic | 25.0% |
| ! | ACAAAAGAGACATGATTATA+AGG | - | chr7_2:36189394-36189413 | Msa1056980:intron | 25.0% |
| ! | CAAAAGAGACATGATTATAA+GGG | - | chr7_2:36189395-36189414 | Msa1056980:intron | 25.0% |
| ! | GTTTAATATTGTACCATCAA+TGG | - | chr7_2:36189503-36189522 | Msa1056980:intron | 25.0% |
| ! | ATTTGAACTTATTCCATTGA+TGG | + | chr7_2:36189519-36189538 | None:intergenic | 25.0% |
| !! | GATATATTGAAGTTATTTCC+TGG | + | chr7_2:36189676-36189695 | None:intergenic | 25.0% |
| !! | GAAATGACATTTTTGTATCA+GGG | + | chr7_2:36189970-36189989 | None:intergenic | 25.0% |
| !! | AGAAATGACATTTTTGTATC+AGG | + | chr7_2:36189971-36189990 | None:intergenic | 25.0% |
| !! | ACAAAAATGTCATTTCTCAA+TGG | - | chr7_2:36189974-36189993 | Msa1056980:intron | 25.0% |
| !! | AGAAATCTAGAACAATTAAG+AGG | + | chr7_2:36190019-36190038 | None:intergenic | 25.0% |
| ! | AGCTGCAAATAATTAAGAAA+TGG | + | chr7_2:36190325-36190344 | None:intergenic | 25.0% |
| ! | TTGTGATGTGAAACTATATT+TGG | - | chr7_2:36190571-36190590 | Msa1056980:intron | 25.0% |
| !! | ACATGTTCAATTTTCGTAAA+AGG | + | chr7_2:36190724-36190743 | None:intergenic | 25.0% |
| ! | AAAATTATGTCAGATGATGA+TGG | - | chr7_2:36191360-36191379 | Msa1056980:intron | 25.0% |
| GTTCTTTGCTTTAGTACATT+TGG | - | chr7_2:36189033-36189052 | Msa1056980:CDS | 30.0% | |
| !! | GCTAAGAGTATTACAAACAA+GGG | + | chr7_2:36189069-36189088 | None:intergenic | 30.0% |
| ! | CGATTGATCATTTGTTACTA+AGG | - | chr7_2:36189088-36189107 | Msa1056980:intron | 30.0% |
| ! | CAGATAGTGATAATTTTTCC+AGG | - | chr7_2:36189655-36189674 | Msa1056980:intron | 30.0% |
| TCATGGATTTGAATTCTCTA+CGG | - | chr7_2:36190211-36190230 | Msa1056980:intron | 30.0% | |
| AAGCCTTAAATGCTCAAATT+GGG | + | chr7_2:36190397-36190416 | None:intergenic | 30.0% | |
| !! | CGGAAAAAAACTACTTTTAG+AGG | + | chr7_2:36190803-36190822 | None:intergenic | 30.0% |
| ! | AAACTTACCAAGAGCATAAT+AGG | + | chr7_2:36190852-36190871 | None:intergenic | 30.0% |
| TGACTATCATGTACAAAAGA+AGG | + | chr7_2:36191070-36191089 | None:intergenic | 30.0% | |
| AAGGAAATCTATGCTTTCTT+TGG | + | chr7_2:36191103-36191122 | None:intergenic | 30.0% | |
| ! | GAATTATCTCACTTCTAAGA+AGG | + | chr7_2:36191122-36191141 | None:intergenic | 30.0% |
| CAGAGATGATAACTTTGATT+AGG | + | chr7_2:36191316-36191335 | None:intergenic | 30.0% | |
| ! | GATGGTTTGATTTATGTTTG+TGG | - | chr7_2:36191378-36191397 | Msa1056980:intron | 30.0% |
| !!! | AGTAGTTCAAGTTTTGAACA+TGG | - | chr7_2:36191417-36191436 | Msa1056980:intron | 30.0% |
| !!! | TCAAGTTTTGAACATGGTAT+TGG | - | chr7_2:36191423-36191442 | Msa1056980:intron | 30.0% |
| AGTTTGATCAATTGATGTGA+AGG | + | chr7_2:36191466-36191485 | None:intergenic | 30.0% | |
| TGAGACAAAAGAGAATAACA+TGG | + | chr7_2:36191496-36191515 | None:intergenic | 30.0% | |
| ! | CATAATAAAGGTGCAAGTTC+CGG | + | chr7_2:36188938-36188957 | None:intergenic | 35.0% |
| !! | CGCTAAGAGTATTACAAACA+AGG | + | chr7_2:36189070-36189089 | None:intergenic | 35.0% |
| ACATGATTATAAGGGAGAGT+TGG | - | chr7_2:36189403-36189422 | Msa1056980:intron | 35.0% | |
| AGGGAGAGTTGGAAAATAAA+AGG | - | chr7_2:36189414-36189433 | Msa1056980:intron | 35.0% | |
| !!! | TGTCATTTTACAACAGCTTG+AGG | + | chr7_2:36189544-36189563 | None:intergenic | 35.0% |
| ! | TCCGCTGTTGAATTTTACTT+AGG | - | chr7_2:36189703-36189722 | Msa1056980:intron | 35.0% |
| GCCTAAGTAAAATTCAACAG+CGG | + | chr7_2:36189707-36189726 | None:intergenic | 35.0% | |
| ! | CATGTTTTCTTTACAGTGTG+TGG | - | chr7_2:36189937-36189956 | Msa1056980:intron | 35.0% |
| GGTTAGATGTAGTCAATTGT+AGG | - | chr7_2:36190236-36190255 | Msa1056980:intron | 35.0% | |
| TAGCCCAATTTGAGCATTTA+AGG | - | chr7_2:36190391-36190410 | Msa1056980:intron | 35.0% | |
| CAAGCCTTAAATGCTCAAAT+TGG | + | chr7_2:36190398-36190417 | None:intergenic | 35.0% | |
| TTGCATTCCTATTATGCTCT+TGG | - | chr7_2:36190842-36190861 | Msa1056980:intron | 35.0% | |
| ! | CTTTTGTACATGATAGTCAC+AGG | - | chr7_2:36191071-36191090 | Msa1056980:intron | 35.0% |
| ATCAAAGTTATCATCTCTGC+AGG | - | chr7_2:36191317-36191336 | Msa1056980:intron | 35.0% | |
| ! | AACATGGTATTGGAAAGTGT+TGG | - | chr7_2:36191433-36191452 | Msa1056980:intron | 35.0% |
| CGGAACTTGCACCTTTATTA+TGG | - | chr7_2:36188936-36188955 | Msa1056980:CDS | 40.0% | |
| GGCAAAAAACACAACAGTAG+TGG | - | chr7_2:36189181-36189200 | Msa1056980:intron | 40.0% | |
| AAATTCAACAGCGGAGTAGT+AGG | + | chr7_2:36189698-36189717 | None:intergenic | 40.0% | |
| !! | ACATGAGAGAAAAGTGCTAG+AGG | + | chr7_2:36189922-36189941 | None:intergenic | 40.0% |
| ! | AGTGCTCTGAATAAGAGTCA+TGG | - | chr7_2:36190194-36190213 | Msa1056980:intron | 40.0% |
| !! | CATTTAAGGCTTGCTAGTCT+TGG | - | chr7_2:36190405-36190424 | Msa1056980:intron | 40.0% |
| GGATTTGAATTCTCTACGGC+TGG | - | chr7_2:36190215-36190234 | Msa1056980:intron | 45.0% | |
| ! | TCGCTTGTCGTTTGAAGGAA+TGG | + | chr7_2:36190369-36190388 | None:intergenic | 45.0% |
| ! | CTAACTCGCTTGTCGTTTGA+AGG | + | chr7_2:36190374-36190393 | None:intergenic | 45.0% |
| !! | CTTGCTAGTCTTGGAGTCAT+TGG | - | chr7_2:36190414-36190433 | Msa1056980:intron | 45.0% |
| TCTTGGAGTCATTGGTGCAT+TGG | - | chr7_2:36190422-36190441 | Msa1056980:intron | 45.0% | |
| ! | AGTCATTGGTGCATTGGTGA+AGG | - | chr7_2:36190428-36190447 | Msa1056980:intron | 45.0% |
| TGCCTACGCAGCATGGAAAT+CGG | - | chr7_2:36191147-36191166 | Msa1056980:intron | 50.0% | |
| TCCAAGAGGCTGTAGCTCAG+TGG | - | chr7_2:36189475-36189494 | Msa1056980:intron | 55.0% | |
| ACCACTGAGCTACAGCCTCT+TGG | + | chr7_2:36189479-36189498 | None:intergenic | 55.0% | |
| TCCACTATGCCTACGCAGCA+TGG | - | chr7_2:36191140-36191159 | Msa1056980:intron | 55.0% | |
| TCCATGCTGCGTAGGCATAG+TGG | + | chr7_2:36191144-36191163 | None:intergenic | 55.0% | |
| !! | TGCCGATTTCCATGCTGCGT+AGG | + | chr7_2:36191152-36191171 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_2 | gene | 36188920 | 36191521 | 36188920 | ID=Msa1056980;Name=Msa1056980 |
| chr7_2 | mRNA | 36188920 | 36191521 | 36188920 | ID=Msa1056980-mRNA-1;Parent=Msa1056980;Name=Msa1056980-mRNA-1;_AED=0.17;_eAED=0.26;_QI=35|0|0|0.8|0.5|0.6|5|0|134 |
| chr7_2 | exon | 36191514 | 36191521 | 36191514 | ID=Msa1056980-mRNA-1:exon:7085;Parent=Msa1056980-mRNA-1 |
| chr7_2 | exon | 36190446 | 36190488 | 36190446 | ID=Msa1056980-mRNA-1:exon:7084;Parent=Msa1056980-mRNA-1 |
| chr7_2 | exon | 36189992 | 36190098 | 36189992 | ID=Msa1056980-mRNA-1:exon:7083;Parent=Msa1056980-mRNA-1 |
| chr7_2 | exon | 36189253 | 36189348 | 36189253 | ID=Msa1056980-mRNA-1:exon:7082;Parent=Msa1056980-mRNA-1 |
| chr7_2 | exon | 36188920 | 36189102 | 36188920 | ID=Msa1056980-mRNA-1:exon:7081;Parent=Msa1056980-mRNA-1 |
| chr7_2 | five_prime_UTR | 36191514 | 36191521 | 36191514 | ID=Msa1056980-mRNA-1:five_prime_utr;Parent=Msa1056980-mRNA-1 |
| chr7_2 | five_prime_UTR | 36190462 | 36190488 | 36190462 | ID=Msa1056980-mRNA-1:five_prime_utr;Parent=Msa1056980-mRNA-1 |
| chr7_2 | CDS | 36190446 | 36190461 | 36190446 | ID=Msa1056980-mRNA-1:cds;Parent=Msa1056980-mRNA-1 |
| chr7_2 | CDS | 36189992 | 36190098 | 36189992 | ID=Msa1056980-mRNA-1:cds;Parent=Msa1056980-mRNA-1 |
| chr7_2 | CDS | 36189253 | 36189348 | 36189253 | ID=Msa1056980-mRNA-1:cds;Parent=Msa1056980-mRNA-1 |
| chr7_2 | CDS | 36188920 | 36189102 | 36188920 | ID=Msa1056980-mRNA-1:cds;Parent=Msa1056980-mRNA-1 |
| Gene Sequence |
| Protein sequence |
