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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0580028139.01.T01 | KEH25180.1 | 69.231 | 130 | 40 | 0 | 2 | 131 | 48 | 177 | 8.94E-56 | 195 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0580028139.01.T01 | A0A072UHA7 | 69.231 | 130 | 40 | 0 | 2 | 131 | 48 | 177 | 4.27e-56 | 195 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MsG0580028139.01 | MsG0580028140.01 | 0.802166 | 6.381357e-49 | 3.104360e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0580028139.01.T01 | MTR_6g016175 | 69.231 | 130 | 40 | 0 | 2 | 131 | 48 | 177 | 1.08e-59 | 195 |
| MsG0580028139.01.T01 | MTR_6g048840 | 65.649 | 131 | 45 | 0 | 1 | 131 | 207 | 337 | 5.46e-58 | 186 |
| MsG0580028139.01.T01 | MTR_6g033705 | 53.398 | 103 | 48 | 0 | 2 | 104 | 43 | 145 | 7.01e-40 | 134 |
| MsG0580028139.01.T01 | MTR_6g024380 | 53.226 | 124 | 58 | 0 | 8 | 131 | 58 | 181 | 1.50e-38 | 136 |
| MsG0580028139.01.T01 | MTR_1g061220 | 54.369 | 103 | 47 | 0 | 2 | 104 | 2513 | 2615 | 9.92e-37 | 133 |
| MsG0580028139.01.T01 | MTR_2g105880 | 44.355 | 124 | 69 | 0 | 8 | 131 | 115 | 238 | 2.07e-35 | 125 |
| MsG0580028139.01.T01 | MTR_3g022950 | 45.902 | 122 | 66 | 0 | 8 | 129 | 691 | 812 | 1.18e-33 | 124 |
| MsG0580028139.01.T01 | MTR_7g083690 | 42.742 | 124 | 71 | 0 | 8 | 131 | 661 | 784 | 1.56e-30 | 115 |
| MsG0580028139.01.T01 | MTR_0938s0010 | 41.538 | 130 | 76 | 0 | 2 | 131 | 33 | 162 | 3.63e-30 | 110 |
| MsG0580028139.01.T01 | MTR_0032s0090 | 43.077 | 130 | 74 | 0 | 2 | 131 | 50 | 179 | 5.58e-30 | 108 |
| MsG0580028139.01.T01 | MTR_7g057470 | 44.628 | 121 | 67 | 0 | 2 | 122 | 261 | 381 | 2.53e-29 | 112 |
| MsG0580028139.01.T01 | MTR_7g057490 | 44.628 | 121 | 67 | 0 | 2 | 122 | 261 | 381 | 2.53e-29 | 112 |
| MsG0580028139.01.T01 | MTR_5g021380 | 44.068 | 118 | 66 | 0 | 14 | 131 | 567 | 684 | 3.65e-29 | 111 |
| MsG0580028139.01.T01 | MTR_0062s0080 | 41.538 | 130 | 76 | 0 | 2 | 131 | 239 | 368 | 6.74e-29 | 110 |
| MsG0580028139.01.T01 | MTR_0062s0050 | 41.538 | 130 | 76 | 0 | 2 | 131 | 239 | 368 | 7.55e-29 | 110 |
| MsG0580028139.01.T01 | MTR_1g036570 | 44.828 | 116 | 64 | 0 | 16 | 131 | 61 | 176 | 4.36e-28 | 102 |
| MsG0580028139.01.T01 | MTR_1g062670 | 42.742 | 124 | 71 | 0 | 8 | 131 | 87 | 210 | 1.53e-27 | 102 |
| MsG0580028139.01.T01 | MTR_1g018785 | 47.368 | 114 | 57 | 2 | 19 | 131 | 44 | 155 | 3.64e-27 | 102 |
| MsG0580028139.01.T01 | MTR_3g448380 | 37.903 | 124 | 77 | 0 | 8 | 131 | 124 | 247 | 4.29e-27 | 102 |
| MsG0580028139.01.T01 | MTR_5g095550 | 42.308 | 104 | 60 | 0 | 2 | 105 | 270 | 373 | 1.83e-25 | 99.8 |
| MsG0580028139.01.T01 | MTR_8g058470 | 40.157 | 127 | 70 | 3 | 8 | 131 | 362 | 485 | 3.83e-25 | 100 |
| MsG0580028139.01.T01 | MTR_7g108760 | 40.157 | 127 | 70 | 3 | 8 | 131 | 364 | 487 | 4.00e-25 | 100 |
| MsG0580028139.01.T01 | MTR_0406s0020 | 37.984 | 129 | 77 | 2 | 19 | 146 | 1 | 127 | 9.29e-25 | 92.4 |
| MsG0580028139.01.T01 | MTR_7g451000 | 40.625 | 128 | 56 | 3 | 8 | 131 | 145 | 256 | 5.72e-24 | 95.5 |
| MsG0580028139.01.T01 | MTR_2g035690 | 44.792 | 96 | 53 | 0 | 36 | 131 | 2 | 97 | 4.55e-23 | 88.2 |
| MsG0580028139.01.T01 | MTR_6g045623 | 52.128 | 94 | 20 | 1 | 33 | 126 | 117 | 185 | 1.56e-22 | 91.7 |
| MsG0580028139.01.T01 | MTR_1g040450 | 38.938 | 113 | 69 | 0 | 19 | 131 | 111 | 223 | 1.73e-22 | 91.7 |
| MsG0580028139.01.T01 | MTR_6g044785 | 44.048 | 84 | 46 | 1 | 15 | 98 | 136 | 218 | 3.07e-20 | 83.6 |
| MsG0580028139.01.T01 | MTR_7g023030 | 40.449 | 89 | 43 | 1 | 8 | 96 | 97 | 175 | 3.26e-19 | 80.1 |
| MsG0580028139.01.T01 | MTR_3g026390 | 56.250 | 64 | 28 | 0 | 68 | 131 | 22 | 85 | 1.78e-17 | 74.7 |
| MsG0580028139.01.T01 | MTR_1g068728 | 38.462 | 130 | 56 | 3 | 2 | 131 | 52 | 157 | 7.65e-16 | 71.6 |
| MsG0580028139.01.T01 | MTR_1g033770 | 42.029 | 69 | 40 | 0 | 1 | 69 | 248 | 316 | 7.56e-15 | 70.5 |
| MsG0580028139.01.T01 | MTR_2g067570 | 39.437 | 71 | 43 | 0 | 61 | 131 | 34 | 104 | 2.81e-12 | 62.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 41 sgRNAs with CRISPR-Local
Find 49 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CGTCCAGTTGTGGGTGCTTT+TGG | 0.283166 | 5:-75353089 | MsG0580028139.01.T01:CDS |
| ATGGGGCCAAGCAGTTATTA+TGG | 0.357314 | 5:-75352926 | MsG0580028139.01.T01:CDS |
| GAGCATGCATTCATTATTCA+TGG | 0.375209 | 5:-75353008 | MsG0580028139.01.T01:CDS |
| TTTGTGGGATCCGTCTATTA+TGG | 0.392042 | 5:-75353054 | MsG0580028139.01.T01:CDS |
| GAAGATATCTCCCTCTTCAT+TGG | 0.393170 | 5:-75352741 | MsG0580028139.01.T01:CDS |
| TTTATGCTCCTTGTGACAAT+GGG | 0.400219 | 5:-75352944 | MsG0580028139.01.T01:CDS |
| GGTATGGTCGTCGTGCAGTA+TGG | 0.402092 | 5:-75353030 | MsG0580028139.01.T01:CDS |
| CTTTAATGCGGTCCGGAGTA+CGG | 0.465716 | 5:-75352844 | MsG0580028139.01.T01:CDS |
| ATTATCAATAAAATCATTGA+AGG | 0.467697 | 5:+75352773 | None:intergenic |
| CCACCAAAAGCACCCACAAC+TGG | 0.468020 | 5:+75353086 | None:intergenic |
| GAAGTTTCACGTGGTACAAA+GGG | 0.488469 | 5:-75352717 | MsG0580028139.01.T01:CDS |
| ATTGAAGGGATCACAATCCT+TGG | 0.490249 | 5:+75352788 | None:intergenic |
| ATTTATGCTCCTTGTGACAA+TGG | 0.495347 | 5:-75352945 | MsG0580028139.01.T01:CDS |
| CGAAGTTTCACGTGGTACAA+AGG | 0.517813 | 5:-75352718 | MsG0580028139.01.T01:CDS |
| GTGAAACTTCGCCAATGAAG+AGG | 0.523670 | 5:+75352730 | None:intergenic |
| CACTAGCCTCTGTAGGTACT+CGG | 0.538623 | 5:+75352893 | None:intergenic |
| ATCCGTCTATTATGGAGGTA+TGG | 0.540077 | 5:-75353046 | MsG0580028139.01.T01:CDS |
| AGAATTCCATAATAACTGCT+TGG | 0.542272 | 5:+75352920 | None:intergenic |
| GTGGTGACTTTAATGCGGTC+CGG | 0.560157 | 5:-75352851 | MsG0580028139.01.T01:CDS |
| GTGGGCCGCAATTTGCTCCA+AGG | 0.574283 | 5:-75352805 | MsG0580028139.01.T01:CDS |
| TGAAACTTCGCCAATGAAGA+GGG | 0.575404 | 5:+75352731 | None:intergenic |
| ACCTTCGTTCCTCCGTACTC+CGG | 0.579154 | 5:+75352832 | None:intergenic |
| GTGGGATCCGTCTATTATGG+AGG | 0.579318 | 5:-75353051 | MsG0580028139.01.T01:CDS |
| TTATCAATAAAATCATTGAA+GGG | 0.585800 | 5:+75352774 | None:intergenic |
| GAGTACCTACAGAGGCTAGT+GGG | 0.594386 | 5:-75352891 | MsG0580028139.01.T01:CDS |
| ACAATCCTTGGAGCAAATTG+CGG | 0.609659 | 5:+75352800 | None:intergenic |
| GTACGGAGGAACGAAGGTCG+AGG | 0.610551 | 5:-75352827 | MsG0580028139.01.T01:CDS |
| TGCTTGGCCCCATTGTCACA+AGG | 0.613835 | 5:+75352936 | None:intergenic |
| AAACAAATAAAATTCATCGT+CGG | 0.617912 | 5:+75352971 | None:intergenic |
| TTCATTGGCGAAGTTTCACG+TGG | 0.619674 | 5:-75352726 | MsG0580028139.01.T01:CDS |
| CGGAGGAACGAAGGTCGAGG+TGG | 0.625097 | 5:-75352824 | MsG0580028139.01.T01:CDS |
| CGAGTACCTACAGAGGCTAG+TGG | 0.627235 | 5:-75352892 | MsG0580028139.01.T01:CDS |
| GACCATACCTCCATAATAGA+CGG | 0.630248 | 5:+75353044 | None:intergenic |
| AGTACCTACAGAGGCTAGTG+GGG | 0.656783 | 5:-75352890 | MsG0580028139.01.T01:CDS |
| GGAGGAACGAAGGTCGAGGT+GGG | 0.657073 | 5:-75352823 | MsG0580028139.01.T01:CDS |
| TCCGGAGTACGGAGGAACGA+AGG | 0.668686 | 5:-75352833 | MsG0580028139.01.T01:CDS |
| TTATGCTCCTTGTGACAATG+GGG | 0.680529 | 5:-75352943 | MsG0580028139.01.T01:CDS |
| TTTGTGTGGTGACTTTAATG+CGG | 0.693332 | 5:-75352856 | MsG0580028139.01.T01:CDS |
| TAATGCGGTCCGGAGTACGG+AGG | 0.707806 | 5:-75352841 | MsG0580028139.01.T01:CDS |
| AAGTTTCACGTGGTACAAAG+GGG | 0.712306 | 5:-75352716 | MsG0580028139.01.T01:CDS |
| CTTTGTCCGAGTACCTACAG+AGG | 0.721142 | 5:-75352899 | MsG0580028139.01.T01:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATTATCAATAAAATCATTGA+AGG | + | Chr5:75353050-75353069 | None:intergenic | 15.0% |
| !! | TTATCAATAAAATCATTGAA+GGG | + | Chr5:75353049-75353068 | None:intergenic | 15.0% |
| !! | AAACAAATAAAATTCATCGT+CGG | + | Chr5:75352852-75352871 | None:intergenic | 20.0% |
| AGAATTCCATAATAACTGCT+TGG | + | Chr5:75352903-75352922 | None:intergenic | 30.0% | |
| GGGAAAAATATTTGTTTGTG+TGG | - | Chr5:75352950-75352969 | MsG0580028139.01.T01:CDS | 30.0% | |
| ATTTATGCTCCTTGTGACAA+TGG | - | Chr5:75352875-75352894 | MsG0580028139.01.T01:CDS | 35.0% | |
| GAGCATGCATTCATTATTCA+TGG | - | Chr5:75352812-75352831 | MsG0580028139.01.T01:CDS | 35.0% | |
| TTTATGCTCCTTGTGACAAT+GGG | - | Chr5:75352876-75352895 | MsG0580028139.01.T01:CDS | 35.0% | |
| TTTGTGTGGTGACTTTAATG+CGG | - | Chr5:75352964-75352983 | MsG0580028139.01.T01:CDS | 35.0% | |
| ! | TGGTGGTATGTTCATTTTGT+GGG | - | Chr5:75352751-75352770 | MsG0580028139.01.T01:CDS | 35.0% |
| !! | TTGGTGGTATGTTCATTTTG+TGG | - | Chr5:75352750-75352769 | MsG0580028139.01.T01:CDS | 35.0% |
| AAGTTTCACGTGGTACAAAG+GGG | - | Chr5:75353104-75353123 | MsG0580028139.01.T01:CDS | 40.0% | |
| ACAATCCTTGGAGCAAATTG+CGG | + | Chr5:75353023-75353042 | None:intergenic | 40.0% | |
| ATCCGTCTATTATGGAGGTA+TGG | - | Chr5:75352774-75352793 | MsG0580028139.01.T01:CDS | 40.0% | |
| ATTGAAGGGATCACAATCCT+TGG | + | Chr5:75353035-75353054 | None:intergenic | 40.0% | |
| GAAGATATCTCCCTCTTCAT+TGG | - | Chr5:75353079-75353098 | MsG0580028139.01.T01:CDS | 40.0% | |
| GAAGTTTCACGTGGTACAAA+GGG | - | Chr5:75353103-75353122 | MsG0580028139.01.T01:CDS | 40.0% | |
| GACCATACCTCCATAATAGA+CGG | + | Chr5:75352779-75352798 | None:intergenic | 40.0% | |
| TGAAACTTCGCCAATGAAGA+GGG | + | Chr5:75353092-75353111 | None:intergenic | 40.0% | |
| TTATGCTCCTTGTGACAATG+GGG | - | Chr5:75352877-75352896 | MsG0580028139.01.T01:CDS | 40.0% | |
| TTTGTGGGATCCGTCTATTA+TGG | - | Chr5:75352766-75352785 | MsG0580028139.01.T01:CDS | 40.0% | |
| ! | TACTCTTTTCGTCCAGTTGT+GGG | - | Chr5:75352722-75352741 | MsG0580028139.01.T01:CDS | 40.0% |
| ! | TTACTCTTTTCGTCCAGTTG+TGG | - | Chr5:75352721-75352740 | MsG0580028139.01.T01:CDS | 40.0% |
| ATGGGGCCAAGCAGTTATTA+TGG | - | Chr5:75352894-75352913 | MsG0580028139.01.T01:CDS | 45.0% | |
| CGAAGTTTCACGTGGTACAA+AGG | - | Chr5:75353102-75353121 | MsG0580028139.01.T01:CDS | 45.0% | |
| GTGAAACTTCGCCAATGAAG+AGG | + | Chr5:75353093-75353112 | None:intergenic | 45.0% | |
| TTCATTGGCGAAGTTTCACG+TGG | - | Chr5:75353094-75353113 | MsG0580028139.01.T01:CDS | 45.0% | |
| !!! | TTTTATTGATAATAATATTT+TGG | - | Chr5:75353057-75353076 | MsG0580028139.01.T01:CDS | 5.0% |
| AGTACCTACAGAGGCTAGTG+GGG | - | Chr5:75352930-75352949 | MsG0580028139.01.T01:CDS | 50.0% | |
| CTTTAATGCGGTCCGGAGTA+CGG | - | Chr5:75352976-75352995 | MsG0580028139.01.T01:CDS | 50.0% | |
| CTTTGTCCGAGTACCTACAG+AGG | - | Chr5:75352921-75352940 | MsG0580028139.01.T01:CDS | 50.0% | |
| GAGTACCTACAGAGGCTAGT+GGG | - | Chr5:75352929-75352948 | MsG0580028139.01.T01:CDS | 50.0% | |
| GTGGGATCCGTCTATTATGG+AGG | - | Chr5:75352769-75352788 | MsG0580028139.01.T01:CDS | 50.0% | |
| GTGGTGACTTTAATGCGGTC+CGG | - | Chr5:75352969-75352988 | MsG0580028139.01.T01:CDS | 50.0% | |
| ! | CACTAGCCTCTGTAGGTACT+CGG | + | Chr5:75352930-75352949 | None:intergenic | 50.0% |
| !! | TTTTCCCCACTAGCCTCTGT+AGG | + | Chr5:75352937-75352956 | None:intergenic | 50.0% |
| ACCTTCGTTCCTCCGTACTC+CGG | + | Chr5:75352991-75353010 | None:intergenic | 55.0% | |
| CGAGTACCTACAGAGGCTAG+TGG | - | Chr5:75352928-75352947 | MsG0580028139.01.T01:CDS | 55.0% | |
| GGTATGGTCGTCGTGCAGTA+TGG | - | Chr5:75352790-75352809 | MsG0580028139.01.T01:CDS | 55.0% | |
| TGCTTGGCCCCATTGTCACA+AGG | + | Chr5:75352887-75352906 | None:intergenic | 55.0% | |
| ! | CCAGTTGTGGGTGCTTTTGG+TGG | - | Chr5:75352734-75352753 | MsG0580028139.01.T01:CDS | 55.0% |
| ! | CGTCCAGTTGTGGGTGCTTT+TGG | - | Chr5:75352731-75352750 | MsG0580028139.01.T01:CDS | 55.0% |
| !! | CCACCAAAAGCACCCACAAC+TGG | + | Chr5:75352737-75352756 | None:intergenic | 55.0% |
| GGAGGAACGAAGGTCGAGGT+GGG | - | Chr5:75352997-75353016 | MsG0580028139.01.T01:CDS | 60.0% | |
| GTACGGAGGAACGAAGGTCG+AGG | - | Chr5:75352993-75353012 | MsG0580028139.01.T01:CDS | 60.0% | |
| TAATGCGGTCCGGAGTACGG+AGG | - | Chr5:75352979-75352998 | MsG0580028139.01.T01:CDS | 60.0% | |
| TCCGGAGTACGGAGGAACGA+AGG | - | Chr5:75352987-75353006 | MsG0580028139.01.T01:CDS | 60.0% | |
| ! | GTGGGCCGCAATTTGCTCCA+AGG | - | Chr5:75353015-75353034 | MsG0580028139.01.T01:CDS | 60.0% |
| CGGAGGAACGAAGGTCGAGG+TGG | - | Chr5:75352996-75353015 | MsG0580028139.01.T01:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr5 | gene | 75352701 | 75353141 | 75352701 | ID=MsG0580028139.01;Name=MsG0580028139.01 |
| Chr5 | mRNA | 75352701 | 75353141 | 75352701 | ID=MsG0580028139.01.T01;Parent=MsG0580028139.01;Name=MsG0580028139.01.T01;_AED=0.47;_eAED=0.47;_QI=0|-1|0|1|-1|1|1|0|146 |
| Chr5 | exon | 75352701 | 75353141 | 75352701 | ID=MsG0580028139.01.T01:exon:45812;Parent=MsG0580028139.01.T01 |
| Chr5 | CDS | 75352701 | 75353141 | 75352701 | ID=MsG0580028139.01.T01:cds;Parent=MsG0580028139.01.T01 |
| Gene Sequence |
| Protein sequence |
