AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene35503


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene35503.t1 MTR_2g021720 100.000 195 0 0 1 195 1 195 2.07e-140 390
MS.gene35503.t1 MTR_2g021720 100.000 194 0 0 1 194 1 194 4.77e-140 390
MS.gene35503.t1 MTR_7g010930 30.288 208 113 6 11 194 18 217 1.69e-19 83.2
MS.gene35503.t1 MTR_6g012390 32.961 179 98 6 32 192 38 212 1.68e-18 80.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene35503.t1 AT3G06180 53.723 188 57 3 32 194 45 227 9.53e-52 167
MS.gene35503.t1 AT5G19025 48.768 203 64 4 32 194 43 245 2.56e-46 154
MS.gene35503.t1 AT5G19025 48.529 204 65 4 32 195 43 246 4.20e-46 153
MS.gene35503.t1 AT3G01170 31.343 201 124 5 3 192 15 212 2.79e-22 90.5
MS.gene35503.t1 AT5G15260 36.264 182 94 7 32 194 52 230 2.96e-21 88.2
MS.gene35503.t1 AT5G15260 36.264 182 94 7 32 194 52 230 2.96e-21 88.2
MS.gene35503.t1 AT3G06180 49.618 131 46 3 32 142 45 175 4.72e-19 81.6

Find 73 sgRNAs with CRISPR-Local

Find 74 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGAAAATGGCTCCTGTTAA+TGG 0.248247 2.4:+65639634 MS.gene35503:CDS
GTTGCTAAGCTTGAAGCTTC+TGG 0.282017 2.4:+65639697 MS.gene35503:CDS
TTCTCCATCGGTTTCGTCTT+CGG 0.286647 2.4:+65639424 MS.gene35503:CDS
GAGGTCGAGGGTGGCGGATG+GGG 0.291939 2.4:-65639269 None:intergenic
ATTTGAAGATAGAGAGATTA+GGG 0.294551 2.4:+65639527 MS.gene35503:CDS
AAAAGAGCTTTCCCATTAAC+AGG 0.315760 2.4:-65639646 None:intergenic
AGGAAGGGAGGAGGAGAGAG+AGG 0.319372 2.4:-65639363 None:intergenic
TTCTGACGCTTTCCTTTCTT+AGG 0.324406 2.4:-65639721 None:intergenic
AGATAGAGAGATTAGGGTTA+GGG 0.332443 2.4:+65639533 MS.gene35503:CDS
ATGATGAATGCGAGGATGTA+AGG 0.334695 2.4:-65639400 None:intergenic
TGGGGAGAGAGAAGGAAGGG+AGG 0.363640 2.4:-65639375 None:intergenic
AAGATAGAGAGATTAGGGTT+AGG 0.375742 2.4:+65639532 MS.gene35503:CDS
GAGGTCTGAGTTAAGGAAAA+TGG 0.398152 2.4:+65639621 MS.gene35503:CDS
GAGAGATTAGGGTTAGGGTT+TGG 0.401531 2.4:+65639538 MS.gene35503:CDS
AGAGAACGAGGAGGAGGATG+AGG 0.403514 2.4:-65639291 None:intergenic
CGAGGAAGTGTGAGCGGAAA+GGG 0.417141 2.4:+65639473 MS.gene35503:CDS
GGAAAATGGCTCCTGTTAAT+GGG 0.417774 2.4:+65639635 MS.gene35503:CDS
GATGAGGAGGTCGAGGGTGG+CGG 0.419973 2.4:-65639275 None:intergenic
GACCTCAAACACTCATAATC+AGG 0.422373 2.4:-65639604 None:intergenic
GATTTGAAGATAGAGAGATT+AGG 0.426811 2.4:+65639526 MS.gene35503:CDS
GTTGAAGATGTAGAGGATGT+AGG 0.435475 2.4:-65639338 None:intergenic
GTGAATATGAGAAACTTCCT+TGG 0.438620 2.4:+65639560 MS.gene35503:CDS
GGAGGAGGATGAGGAGGTCG+AGG 0.441658 2.4:-65639282 None:intergenic
GGAAAGCGTCAGAAGAGGTT+AGG 0.449218 2.4:+65639730 MS.gene35503:CDS
GTGAGCGGAAAGGGTGTAAA+GGG 0.452025 2.4:+65639482 MS.gene35503:CDS
GGAGAGAGAAGGAAGGGAGG+AGG 0.454349 2.4:-65639372 None:intergenic
AGAGGGAGTTGAAGATGTAG+AGG 0.456028 2.4:-65639345 None:intergenic
ATCCTGATTATGAGTGTTTG+AGG 0.464912 2.4:+65639602 MS.gene35503:CDS
AGAGGATGTAGGAAGAGAGA+AGG 0.465124 2.4:-65639327 None:intergenic
GAGGATGAGGAGGTCGAGGG+TGG 0.469592 2.4:-65639278 None:intergenic
AGGAGGTCGAGGGTGGCGGA+TGG 0.474368 2.4:-65639271 None:intergenic
GTAAGGGATGGGGAGAGAGA+AGG 0.474797 2.4:-65639383 None:intergenic
GGAAGGGAGGAGGAGAGAGA+GGG 0.479217 2.4:-65639362 None:intergenic
GGAGGTCGAGGGTGGCGGAT+GGG 0.479340 2.4:-65639270 None:intergenic
GAAGCTTCAAGCTTAGCAAC+AGG 0.479449 2.4:-65639694 None:intergenic
AGTGTTTGAGGTCTGAGTTA+AGG 0.480456 2.4:+65639614 MS.gene35503:CDS
GCATTCATCATCTTCTCCAT+CGG 0.493706 2.4:+65639412 MS.gene35503:CDS
CGGAGAAGAGAACGAGGAGG+AGG 0.502036 2.4:-65639297 None:intergenic
TGTGAGCGGAAAGGGTGTAA+AGG 0.504435 2.4:+65639481 MS.gene35503:CDS
CTCCTCCTCGTTCTCTTCTC+CGG 0.508827 2.4:+65639298 MS.gene35503:CDS
CCTTGGAAAGGTGGGAGTGA+AGG 0.509828 2.4:+65639577 MS.gene35503:CDS
CTTGGAAAGGTGGGAGTGAA+GGG 0.516479 2.4:+65639578 MS.gene35503:CDS
AATGCGAGGATGTAAGGGAT+GGG 0.524206 2.4:-65639394 None:intergenic
GAGAAACTTCCTTGGAAAGG+TGG 0.532025 2.4:+65639568 MS.gene35503:CDS
CCTTCACTCCCACCTTTCCA+AGG 0.533293 2.4:-65639577 None:intergenic
GAAGCTTCTGGTCCTAAGAA+AGG 0.534494 2.4:+65639709 MS.gene35503:CDS
AGAGGAAGATGAAGATGAAG+AGG 0.540483 2.4:-65639200 None:intergenic
GGATGGGGAGAGAGAAGGAA+GGG 0.553140 2.4:-65639378 None:intergenic
GAGGAGGATGAGGAGGTCGA+GGG 0.555296 2.4:-65639281 None:intergenic
GGGATGGGGAGAGAGAAGGA+AGG 0.558143 2.4:-65639379 None:intergenic
ATGCGAGGATGTAAGGGATG+GGG 0.563162 2.4:-65639393 None:intergenic
GAGGAAGATGAAGATGAAGA+GGG 0.563876 2.4:-65639199 None:intergenic
TATGTTGCGGTGCTCGATCG+AGG 0.567177 2.4:+65639455 MS.gene35503:CDS
AGAAACTTCCTTGGAAAGGT+GGG 0.577982 2.4:+65639569 MS.gene35503:CDS
TGCAGAGATTGTTGCAATGG+TGG 0.578137 2.4:-65639234 None:intergenic
TCGAGGAAGTGTGAGCGGAA+AGG 0.582933 2.4:+65639472 MS.gene35503:CDS
TGATGAATGCGAGGATGTAA+GGG 0.585002 2.4:-65639399 None:intergenic
AGTTGCAGAGATTGTTGCAA+TGG 0.585063 2.4:-65639237 None:intergenic
GAATGCGAGGATGTAAGGGA+TGG 0.586112 2.4:-65639395 None:intergenic
TATGAGAAACTTCCTTGGAA+AGG 0.586994 2.4:+65639565 MS.gene35503:CDS
GTTAACATAAACATGCAAGA+AGG 0.603240 2.4:+65639154 None:intergenic
GAACGAGGAGGAGGATGAGG+AGG 0.608762 2.4:-65639288 None:intergenic
ACGCGCCGGAGAAGAGAACG+AGG 0.608896 2.4:-65639303 None:intergenic
AGAAAGGAAAGCGTCAGAAG+AGG 0.610714 2.4:+65639725 MS.gene35503:CDS
GGAAGAGAGAAGGAACGCGC+CGG 0.628439 2.4:-65639317 None:intergenic
CTCGATCGAGGAAGTGTGAG+CGG 0.637391 2.4:+65639467 MS.gene35503:CDS
CGCCGGAGAAGAGAACGAGG+AGG 0.649974 2.4:-65639300 None:intergenic
AAAACCGAAGACGAAACCGA+TGG 0.658416 2.4:-65639428 None:intergenic
ATGGTGGCGTAATGATGAAG+AGG 0.679254 2.4:-65639218 None:intergenic
TAAAGGGTTGAAGAAAGCGA+CGG 0.685657 2.4:+65639498 MS.gene35503:CDS
TGGAGAAGATGATGAATGCG+AGG 0.698786 2.4:-65639408 None:intergenic
TTAGCAACAGGACAACCACA+AGG 0.706608 2.4:-65639682 None:intergenic
AGATGAAGAGGGCATTGCTG+TGG 0.719826 2.4:-65639188 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATTTGAAGATAGAGAGATTA+GGG + chr2.4:65639527-65639546 MS.gene35503:CDS 25.0%
GATTTGAAGATAGAGAGATT+AGG + chr2.4:65639526-65639545 MS.gene35503:CDS 30.0%
AAAAGAGCTTTCCCATTAAC+AGG - chr2.4:65639649-65639668 None:intergenic 35.0%
AAGATAGAGAGATTAGGGTT+AGG + chr2.4:65639532-65639551 MS.gene35503:CDS 35.0%
AGATAGAGAGATTAGGGTTA+GGG + chr2.4:65639533-65639552 MS.gene35503:CDS 35.0%
ATCCTGATTATGAGTGTTTG+AGG + chr2.4:65639602-65639621 MS.gene35503:CDS 35.0%
GTGAATATGAGAAACTTCCT+TGG + chr2.4:65639560-65639579 MS.gene35503:CDS 35.0%
TATGAGAAACTTCCTTGGAA+AGG + chr2.4:65639565-65639584 MS.gene35503:CDS 35.0%
!!! TTCGGTTTTGAGATATGTTG+CGG + chr2.4:65639442-65639461 MS.gene35503:CDS 35.0%
AGAAACTTCCTTGGAAAGGT+GGG + chr2.4:65639569-65639588 MS.gene35503:CDS 40.0%
AGAGGAAGATGAAGATGAAG+AGG - chr2.4:65639203-65639222 None:intergenic 40.0%
AGGAAAATGGCTCCTGTTAA+TGG + chr2.4:65639634-65639653 MS.gene35503:CDS 40.0%
AGTTGCAGAGATTGTTGCAA+TGG - chr2.4:65639240-65639259 None:intergenic 40.0%
ATGATGAATGCGAGGATGTA+AGG - chr2.4:65639403-65639422 None:intergenic 40.0%
GACCTCAAACACTCATAATC+AGG - chr2.4:65639607-65639626 None:intergenic 40.0%
GAGGAAGATGAAGATGAAGA+GGG - chr2.4:65639202-65639221 None:intergenic 40.0%
GAGGTCTGAGTTAAGGAAAA+TGG + chr2.4:65639621-65639640 MS.gene35503:CDS 40.0%
GCATTCATCATCTTCTCCAT+CGG + chr2.4:65639412-65639431 MS.gene35503:CDS 40.0%
GGAAAATGGCTCCTGTTAAT+GGG + chr2.4:65639635-65639654 MS.gene35503:CDS 40.0%
GTTGAAGATGTAGAGGATGT+AGG - chr2.4:65639341-65639360 None:intergenic 40.0%
TAAAGGGTTGAAGAAAGCGA+CGG + chr2.4:65639498-65639517 MS.gene35503:CDS 40.0%
TGATGAATGCGAGGATGTAA+GGG - chr2.4:65639402-65639421 None:intergenic 40.0%
TTCTGACGCTTTCCTTTCTT+AGG - chr2.4:65639724-65639743 None:intergenic 40.0%
! AGTGTTTGAGGTCTGAGTTA+AGG + chr2.4:65639614-65639633 MS.gene35503:CDS 40.0%
!!! TTGCTTTTTAGAGCTCCTTG+TGG + chr2.4:65639667-65639686 MS.gene35503:CDS 40.0%
AAAACCGAAGACGAAACCGA+TGG - chr2.4:65639431-65639450 None:intergenic 45.0%
AATGCGAGGATGTAAGGGAT+GGG - chr2.4:65639397-65639416 None:intergenic 45.0%
AGAGGATGTAGGAAGAGAGA+AGG - chr2.4:65639330-65639349 None:intergenic 45.0%
AGAGGGAGTTGAAGATGTAG+AGG - chr2.4:65639348-65639367 None:intergenic 45.0%
GAAGCTTCAAGCTTAGCAAC+AGG - chr2.4:65639697-65639716 None:intergenic 45.0%
GAAGCTTCTGGTCCTAAGAA+AGG + chr2.4:65639709-65639728 MS.gene35503:CDS 45.0%
GAGAAACTTCCTTGGAAAGG+TGG + chr2.4:65639568-65639587 MS.gene35503:CDS 45.0%
GAGAGATTAGGGTTAGGGTT+TGG + chr2.4:65639538-65639557 MS.gene35503:CDS 45.0%
GTTGCTAAGCTTGAAGCTTC+TGG + chr2.4:65639697-65639716 MS.gene35503:CDS 45.0%
TGCAGAGATTGTTGCAATGG+TGG - chr2.4:65639237-65639256 None:intergenic 45.0%
TGGAGAAGATGATGAATGCG+AGG - chr2.4:65639411-65639430 None:intergenic 45.0%
TTAGCAACAGGACAACCACA+AGG - chr2.4:65639685-65639704 None:intergenic 45.0%
! ATGGTGGCGTAATGATGAAG+AGG - chr2.4:65639221-65639240 None:intergenic 45.0%
!! AGAAAGGAAAGCGTCAGAAG+AGG + chr2.4:65639725-65639744 MS.gene35503:CDS 45.0%
!! TTCTCCATCGGTTTCGTCTT+CGG + chr2.4:65639424-65639443 MS.gene35503:CDS 45.0%
ATGCGAGGATGTAAGGGATG+GGG - chr2.4:65639396-65639415 None:intergenic 50.0%
CTTGGAAAGGTGGGAGTGAA+GGG + chr2.4:65639578-65639597 MS.gene35503:CDS 50.0%
GAATGCGAGGATGTAAGGGA+TGG - chr2.4:65639398-65639417 None:intergenic 50.0%
! GTGAGCGGAAAGGGTGTAAA+GGG + chr2.4:65639482-65639501 MS.gene35503:CDS 50.0%
! TGTGAGCGGAAAGGGTGTAA+AGG + chr2.4:65639481-65639500 MS.gene35503:CDS 50.0%
!! AGATGAAGAGGGCATTGCTG+TGG - chr2.4:65639191-65639210 None:intergenic 50.0%
!! GGAAAGCGTCAGAAGAGGTT+AGG + chr2.4:65639730-65639749 MS.gene35503:CDS 50.0%
AGAGAACGAGGAGGAGGATG+AGG - chr2.4:65639294-65639313 None:intergenic 55.0%
CCTTCACTCCCACCTTTCCA+AGG - chr2.4:65639580-65639599 None:intergenic 55.0%
CCTTGGAAAGGTGGGAGTGA+AGG + chr2.4:65639577-65639596 MS.gene35503:CDS 55.0%
CTCCTCCTCGTTCTCTTCTC+CGG + chr2.4:65639298-65639317 MS.gene35503:CDS 55.0%
GGATGGGGAGAGAGAAGGAA+GGG - chr2.4:65639381-65639400 None:intergenic 55.0%
GTAAGGGATGGGGAGAGAGA+AGG - chr2.4:65639386-65639405 None:intergenic 55.0%
TATGTTGCGGTGCTCGATCG+AGG + chr2.4:65639455-65639474 MS.gene35503:CDS 55.0%
! CGAGGAAGTGTGAGCGGAAA+GGG + chr2.4:65639473-65639492 MS.gene35503:CDS 55.0%
! CTCGATCGAGGAAGTGTGAG+CGG + chr2.4:65639467-65639486 MS.gene35503:CDS 55.0%
! TCGAGGAAGTGTGAGCGGAA+AGG + chr2.4:65639472-65639491 MS.gene35503:CDS 55.0%
AGGAAGGGAGGAGGAGAGAG+AGG - chr2.4:65639366-65639385 None:intergenic 60.0%
CGGAGAAGAGAACGAGGAGG+AGG - chr2.4:65639300-65639319 None:intergenic 60.0%
GAACGAGGAGGAGGATGAGG+AGG - chr2.4:65639291-65639310 None:intergenic 60.0%
GAGGAGGATGAGGAGGTCGA+GGG - chr2.4:65639284-65639303 None:intergenic 60.0%
GGAAGAGAGAAGGAACGCGC+CGG - chr2.4:65639320-65639339 None:intergenic 60.0%
GGAAGGGAGGAGGAGAGAGA+GGG - chr2.4:65639365-65639384 None:intergenic 60.0%
GGAGAGAGAAGGAAGGGAGG+AGG - chr2.4:65639375-65639394 None:intergenic 60.0%
GGGATGGGGAGAGAGAAGGA+AGG - chr2.4:65639382-65639401 None:intergenic 60.0%
TGGGGAGAGAGAAGGAAGGG+AGG - chr2.4:65639378-65639397 None:intergenic 60.0%
ACGCGCCGGAGAAGAGAACG+AGG - chr2.4:65639306-65639325 None:intergenic 65.0%
CGCCGGAGAAGAGAACGAGG+AGG - chr2.4:65639303-65639322 None:intergenic 65.0%
GAGGATGAGGAGGTCGAGGG+TGG - chr2.4:65639281-65639300 None:intergenic 65.0%
GATGAGGAGGTCGAGGGTGG+CGG - chr2.4:65639278-65639297 None:intergenic 65.0%
GGAGGAGGATGAGGAGGTCG+AGG - chr2.4:65639285-65639304 None:intergenic 65.0%
!! AGGAGGTCGAGGGTGGCGGA+TGG - chr2.4:65639274-65639293 None:intergenic 70.0%
!! GAGGTCGAGGGTGGCGGATG+GGG - chr2.4:65639272-65639291 None:intergenic 70.0%
!! GGAGGTCGAGGGTGGCGGAT+GGG - chr2.4:65639273-65639292 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr2.4 gene 65639166 65639798 65639166 ID=MS.gene35503
chr2.4 mRNA 65639166 65639798 65639166 ID=MS.gene35503.t1;Parent=MS.gene35503
chr2.4 exon 65639166 65639798 65639166 ID=MS.gene35503.t1.exon1;Parent=MS.gene35503.t1
chr2.4 CDS 65639166 65639798 65639166 ID=cds.MS.gene35503.t1;Parent=MS.gene35503.t1
Gene Sequence

>MS.gene35503

ATGCAAGAAGGCATTGTGTTAACCACAGCAATGCCCTCTTCATCTTCATCTTCCTCTTCATCATTACGCCACCATTGCAACAATCTCTGCAACTGCAAACATGCCCCATCCGCCACCCTCGACCTCCTCATCCTCCTCCTCGTTCTCTTCTCCGGCGCGTTCCTTCTCTCTTCCTACATCCTCTACATCTTCAACTCCCTCTCTCTCCTCCTCCCTTCCTTCTCTCTCCCCATCCCTTACATCCTCGCATTCATCATCTTCTCCATCGGTTTCGTCTTCGGTTTTGAGATATGTTGCGGTGCTCGATCGAGGAAGTGTGAGCGGAAAGGGTGTAAAGGGTTGAAGAAAGCGACGGAGTTTGATTTGAAGATAGAGAGATTAGGGTTAGGGTTTGGTGAATATGAGAAACTTCCTTGGAAAGGTGGGAGTGAAGGGAATCCTGATTATGAGTGTTTGAGGTCTGAGTTAAGGAAAATGGCTCCTGTTAATGGGAAAGCTCTTTTGCTTTTTAGAGCTCCTTGTGGTTGTCCTGTTGCTAAGCTTGAAGCTTCTGGTCCTAAGAAAGGAAAGCGTCAGAAGAGGTTAGGTTTTACTCGCTCACTCATAGTCAAAAGATTGATTCAATTTGTCTAA

Protein sequence

>MS.gene35503.t1

MQEGIVLTTAMPSSSSSSSSSLRHHCNNLCNCKHAPSATLDLLILLLVLFSGAFLLSSYILYIFNSLSLLLPSFSLPIPYILAFIIFSIGFVFGFEICCGARSRKCERKGCKGLKKATEFDLKIERLGLGFGEYEKLPWKGGSEGNPDYECLRSELRKMAPVNGKALLLFRAPCGCPVAKLEASGPKKGKRQKRLGFTRSLIVKRLIQFV