AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene76537


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene76537.t1 MTR_2g101120 96.410 195 7 0 1 195 1 195 4.40e-143 396
MS.gene76537.t1 MTR_2g101130 84.422 199 26 2 1 194 1 199 2.27e-113 321
MS.gene76537.t1 MTR_8g014030 68.367 196 53 5 1 194 1 189 2.86e-93 270
MS.gene76537.t1 MTR_8g014010 62.887 194 61 5 1 192 1 185 1.22e-80 238
MS.gene76537.t1 MTR_8g014020 64.789 142 41 5 55 194 1 135 3.56e-57 177
MS.gene76537.t1 MTR_6g088545 41.451 193 86 7 7 194 10 180 7.49e-40 134
MS.gene76537.t1 MTR_6g088525 43.005 193 82 9 7 194 10 179 3.73e-39 133
MS.gene76537.t1 MTR_6g088505 42.268 194 83 9 7 194 10 180 2.26e-37 128
MS.gene76537.t1 MTR_6g088565 38.342 193 92 6 7 194 10 180 2.04e-36 126
MS.gene76537.t1 MTR_8g102660 36.139 202 92 7 1 194 3 175 1.24e-31 113
MS.gene76537.t1 MTR_0016s0060 38.547 179 82 5 22 194 1 157 2.31e-29 107
MS.gene76537.t1 MTR_0016s0050 38.728 173 69 6 32 194 1 146 2.46e-26 99.4
MS.gene76537.t1 MTR_7g084690 34.272 213 114 13 1 195 1 205 3.60e-21 87.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene76537.t1 AT1G52140 46.479 213 83 9 1 194 1 201 2.87e-52 167
MS.gene76537.t1 AT3G16330 45.794 214 78 10 1 194 1 196 1.65e-45 149
MS.gene76537.t1 AT4G29110 39.286 196 91 6 1 194 14 183 7.07e-31 112

Find 66 sgRNAs with CRISPR-Local

Find 69 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCCAGCACTGCCGGGGTTT+GGG 0.239750 2.3:+2780364 MS.gene76537:CDS
TGCGGTGACGTTTCCCTATT+GGG 0.266243 2.3:-2780218 None:intergenic
TCTCCAGCACTGCCGGGGTT+TGG 0.293342 2.3:+2780363 MS.gene76537:CDS
CTGCGGTGACGTTTCCCTAT+TGG 0.315623 2.3:-2780219 None:intergenic
TGTGGTGATGGTGGAACATT+AGG 0.346556 2.3:-2780098 None:intergenic
CGCCCAAACCCCGGCAGTGC+TGG 0.348125 2.3:-2780366 None:intergenic
ATCAAGCTTGCTTCCTCAAC+TGG 0.348831 2.3:-2780506 None:intergenic
TTCTCATCATCTTCTCTTAG+AGG 0.359691 2.3:-2780432 None:intergenic
CCCTCAATTGCCTCACCATT+GGG 0.379653 2.3:-2780392 None:intergenic
ATCAAAGAGAGTGTGGAATA+TGG 0.384105 2.3:+2779963 MS.gene76537:CDS
CTGCTGAAGAATTCATAAAC+AGG 0.405304 2.3:+2780475 MS.gene76537:CDS
CCCAACCACTTCTTCCCAAT+AGG 0.431411 2.3:+2780204 MS.gene76537:CDS
ACCCTCAATTGCCTCACCAT+TGG 0.445910 2.3:-2780393 None:intergenic
CCAACCACTTCTTCCCAATA+GGG 0.449763 2.3:+2780205 MS.gene76537:CDS
ACTCCCTTGATGCGGTGAAT+TGG 0.458187 2.3:-2780158 None:intergenic
CCTATTGGGAAGAAGTGGTT+GGG 0.460023 2.3:-2780204 None:intergenic
AGGTGGAGCCGCCGTGGTTG+TGG 0.461991 2.3:-2780116 None:intergenic
AGCCGCCGTGGTTGTGGTGA+TGG 0.464409 2.3:-2780110 None:intergenic
GGCGTTTGAGCATCATGTTT+AGG 0.464704 2.3:-2780044 None:intergenic
GTCAAAGGGCAAACTAATGA+TGG 0.467955 2.3:+2780020 MS.gene76537:CDS
GCCTTCTTCATGTTGAGAAA+AGG 0.468789 2.3:+2779994 MS.gene76537:CDS
AGAAGCATCTCCAGCACTGC+CGG 0.469201 2.3:+2780356 MS.gene76537:CDS
GTGTGAGCGGCGGCTTGAGG+TGG 0.473046 2.3:-2780133 None:intergenic
AGGTGGCGCTTGAGCGGAAG+TGG 0.487819 2.3:-2780256 None:intergenic
CCCTTGATGCGGTGAATTGG+TGG 0.491684 2.3:-2780155 None:intergenic
GCCCAATGGTGAGGCAATTG+AGG 0.492156 2.3:+2780391 MS.gene76537:CDS
CACACTCTCTTTGATATCAC+TGG 0.497371 2.3:-2779955 None:intergenic
TCATCTTCTCTTAGAGGGAA+TGG 0.502641 2.3:-2780426 None:intergenic
GAAGCATCTCCAGCACTGCC+GGG 0.503234 2.3:+2780357 MS.gene76537:CDS
CCCTATTGGGAAGAAGTGGT+TGG 0.503761 2.3:-2780205 None:intergenic
GGCGACAATGAGCGCAATGA+AGG 0.505967 2.3:+2780296 MS.gene76537:CDS
GAGCGCAATGAAGGCAGTGT+TGG 0.509463 2.3:+2780305 MS.gene76537:CDS
AAACGCCGCAGCAAGCTCGC+CGG 0.510889 2.3:+2780060 MS.gene76537:CDS
CCCAATGGTGAGGCAATTGA+GGG 0.515343 2.3:+2780392 MS.gene76537:CDS
GAAGGACGATCAAGTTGATA+AGG 0.519057 2.3:+2780452 MS.gene76537:CDS
CGCTCAAGCGCCACCTACAC+AGG 0.523001 2.3:+2780263 MS.gene76537:CDS
TCTCATCATCTTCTCTTAGA+GGG 0.530370 2.3:-2780431 None:intergenic
GGGGTTTGGGCGTAGCCCAA+TGG 0.530765 2.3:+2780377 MS.gene76537:CDS
TTGAGAAAAGGCATGTCAAA+GGG 0.534014 2.3:+2780006 MS.gene76537:CDS
CTGTGTAGGTGGCGCTTGAG+CGG 0.542519 2.3:-2780262 None:intergenic
ACCACCAATTCACCGCATCA+AGG 0.543219 2.3:+2780154 MS.gene76537:CDS
GTGGTGTGAGCGGCGGCTTG+AGG 0.555757 2.3:-2780136 None:intergenic
GTTGAGAAAAGGCATGTCAA+AGG 0.559027 2.3:+2780005 MS.gene76537:CDS
ACCTCATCATCCTGTGTAGG+TGG 0.565659 2.3:-2780273 None:intergenic
GTGGAACATTAGGTTGGCAA+TGG 0.565737 2.3:-2780088 None:intergenic
GTTTCCCTATTGGGAAGAAG+TGG 0.569833 2.3:-2780209 None:intergenic
TGGAGAAGTTGTTGTGGCTG+CGG 0.571576 2.3:-2780236 None:intergenic
CGCCGTGGTTGTGGTGATGG+TGG 0.578705 2.3:-2780107 None:intergenic
TCAAAGGGCAAACTAATGAT+GGG 0.588410 2.3:+2780021 MS.gene76537:CDS
CAGTGATATCAAAGAGAGTG+TGG 0.593721 2.3:+2779956 MS.gene76537:CDS
TCTAAGAGAAGATGATGAGA+AGG 0.594411 2.3:+2780434 MS.gene76537:CDS
ATTGGGCTACGCCCAAACCC+CGG 0.596167 2.3:-2780375 None:intergenic
CGGTGAATTGGTGGTGTGAG+CGG 0.608131 2.3:-2780146 None:intergenic
TGAATTGGTGGTGTGAGCGG+CGG 0.628937 2.3:-2780143 None:intergenic
AAGCATCTCCAGCACTGCCG+GGG 0.632731 2.3:+2780358 MS.gene76537:CDS
ACCTACACAGGATGATGAGG+TGG 0.634579 2.3:+2780275 MS.gene76537:CDS
CCACCAATTCACCGCATCAA+GGG 0.637439 2.3:+2780155 MS.gene76537:CDS
GGCTTGAGGTGGAGCCGCCG+TGG 0.640629 2.3:-2780122 None:intergenic
TTCCACCATCACCACAACCA+CGG 0.649090 2.3:+2780105 MS.gene76537:CDS
GCCACCTCATCATCCTGTGT+AGG 0.650227 2.3:-2780276 None:intergenic
CGGAAGTGGAGAAGTTGTTG+TGG 0.651141 2.3:-2780242 None:intergenic
TTGGGCGTAGCCCAATGGTG+AGG 0.651506 2.3:+2780382 MS.gene76537:CDS
GTGATGGTGGAACATTAGGT+TGG 0.654305 2.3:-2780094 None:intergenic
GCCACCTACACAGGATGATG+AGG 0.661418 2.3:+2780272 MS.gene76537:CDS
GAATTCATACTCCCTTGATG+CGG 0.696823 2.3:-2780166 None:intergenic
CACCATCACCACAACCACGG+CGG 0.721311 2.3:+2780108 MS.gene76537:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
CTGCTGAAGAATTCATAAAC+AGG + chr2.3:2780475-2780494 MS.gene76537:CDS 35.0%
TCAAAGGGCAAACTAATGAT+GGG + chr2.3:2780021-2780040 MS.gene76537:CDS 35.0%
TCTAAGAGAAGATGATGAGA+AGG + chr2.3:2780434-2780453 MS.gene76537:CDS 35.0%
TCTCATCATCTTCTCTTAGA+GGG - chr2.3:2780434-2780453 None:intergenic 35.0%
TTCTCATCATCTTCTCTTAG+AGG - chr2.3:2780435-2780454 None:intergenic 35.0%
! ATCAAAGAGAGTGTGGAATA+TGG + chr2.3:2779963-2779982 MS.gene76537:CDS 35.0%
! TTGAGAAAAGGCATGTCAAA+GGG + chr2.3:2780006-2780025 MS.gene76537:CDS 35.0%
CACACTCTCTTTGATATCAC+TGG - chr2.3:2779958-2779977 None:intergenic 40.0%
CAGTGATATCAAAGAGAGTG+TGG + chr2.3:2779956-2779975 MS.gene76537:CDS 40.0%
GAATTCATACTCCCTTGATG+CGG - chr2.3:2780169-2780188 None:intergenic 40.0%
GCCTTCTTCATGTTGAGAAA+AGG + chr2.3:2779994-2780013 MS.gene76537:CDS 40.0%
GTCAAAGGGCAAACTAATGA+TGG + chr2.3:2780020-2780039 MS.gene76537:CDS 40.0%
TCATCTTCTCTTAGAGGGAA+TGG - chr2.3:2780429-2780448 None:intergenic 40.0%
! GCCTTTTCTCAACATGAAGA+AGG - chr2.3:2779998-2780017 None:intergenic 40.0%
! GTTGAGAAAAGGCATGTCAA+AGG + chr2.3:2780005-2780024 MS.gene76537:CDS 40.0%
!! GAAGGACGATCAAGTTGATA+AGG + chr2.3:2780452-2780471 MS.gene76537:CDS 40.0%
CCAACCACTTCTTCCCAATA+GGG + chr2.3:2780205-2780224 MS.gene76537:CDS 45.0%
CCTATTGGGAAGAAGTGGTT+GGG - chr2.3:2780207-2780226 None:intergenic 45.0%
GGCGTTTGAGCATCATGTTT+AGG - chr2.3:2780047-2780066 None:intergenic 45.0%
GTTTCCCTATTGGGAAGAAG+TGG - chr2.3:2780212-2780231 None:intergenic 45.0%
! ACAGGTTTTACAGCCAGTTG+AGG + chr2.3:2780493-2780512 MS.gene76537:CDS 45.0%
!! GTGATGGTGGAACATTAGGT+TGG - chr2.3:2780097-2780116 None:intergenic 45.0%
!! GTGGAACATTAGGTTGGCAA+TGG - chr2.3:2780091-2780110 None:intergenic 45.0%
!! TAGGTTGGCAATGGCTTTTC+CGG - chr2.3:2780082-2780101 None:intergenic 45.0%
!! TGTGGTGATGGTGGAACATT+AGG - chr2.3:2780101-2780120 None:intergenic 45.0%
ACCACCAATTCACCGCATCA+AGG + chr2.3:2780154-2780173 MS.gene76537:CDS 50.0%
ACCCTCAATTGCCTCACCAT+TGG - chr2.3:2780396-2780415 None:intergenic 50.0%
ACCTACACAGGATGATGAGG+TGG + chr2.3:2780275-2780294 MS.gene76537:CDS 50.0%
ACCTCATCATCCTGTGTAGG+TGG - chr2.3:2780276-2780295 None:intergenic 50.0%
ACTCCCTTGATGCGGTGAAT+TGG - chr2.3:2780161-2780180 None:intergenic 50.0%
CCACCAATTCACCGCATCAA+GGG + chr2.3:2780155-2780174 MS.gene76537:CDS 50.0%
CCCAACCACTTCTTCCCAAT+AGG + chr2.3:2780204-2780223 MS.gene76537:CDS 50.0%
CCCAATGGTGAGGCAATTGA+GGG + chr2.3:2780392-2780411 MS.gene76537:CDS 50.0%
CCCTATTGGGAAGAAGTGGT+TGG - chr2.3:2780208-2780227 None:intergenic 50.0%
CCCTCAATTGCCTCACCATT+GGG - chr2.3:2780395-2780414 None:intergenic 50.0%
CGGAAGTGGAGAAGTTGTTG+TGG - chr2.3:2780245-2780264 None:intergenic 50.0%
TGCGGTGACGTTTCCCTATT+GGG - chr2.3:2780221-2780240 None:intergenic 50.0%
TGGAGAAGTTGTTGTGGCTG+CGG - chr2.3:2780239-2780258 None:intergenic 50.0%
TTCCACCATCACCACAACCA+CGG + chr2.3:2780105-2780124 MS.gene76537:CDS 50.0%
CCCTTGATGCGGTGAATTGG+TGG - chr2.3:2780158-2780177 None:intergenic 55.0%
CTGCGGTGACGTTTCCCTAT+TGG - chr2.3:2780222-2780241 None:intergenic 55.0%
GAGCGCAATGAAGGCAGTGT+TGG + chr2.3:2780305-2780324 MS.gene76537:CDS 55.0%
GCCACCTACACAGGATGATG+AGG + chr2.3:2780272-2780291 MS.gene76537:CDS 55.0%
GCCACCTCATCATCCTGTGT+AGG - chr2.3:2780279-2780298 None:intergenic 55.0%
GCCCAATGGTGAGGCAATTG+AGG + chr2.3:2780391-2780410 MS.gene76537:CDS 55.0%
GGCGACAATGAGCGCAATGA+AGG + chr2.3:2780296-2780315 MS.gene76537:CDS 55.0%
!! AGAAGCATCTCCAGCACTGC+CGG + chr2.3:2780356-2780375 MS.gene76537:CDS 55.0%
!! CGGTGAATTGGTGGTGTGAG+CGG - chr2.3:2780149-2780168 None:intergenic 55.0%
!! TGAATTGGTGGTGTGAGCGG+CGG - chr2.3:2780146-2780165 None:intergenic 55.0%
AAGCATCTCCAGCACTGCCG+GGG + chr2.3:2780358-2780377 MS.gene76537:CDS 60.0%
ATTGGGCTACGCCCAAACCC+CGG - chr2.3:2780378-2780397 None:intergenic 60.0%
CACCATCACCACAACCACGG+CGG + chr2.3:2780108-2780127 MS.gene76537:CDS 60.0%
CTGTGTAGGTGGCGCTTGAG+CGG - chr2.3:2780265-2780284 None:intergenic 60.0%
TTGGGCGTAGCCCAATGGTG+AGG + chr2.3:2780382-2780401 MS.gene76537:CDS 60.0%
! GAAGCATCTCCAGCACTGCC+GGG + chr2.3:2780357-2780376 MS.gene76537:CDS 60.0%
!!! CTTTTCCGGCGAGCTTGCTG+CGG - chr2.3:2780068-2780087 None:intergenic 60.0%
AAACGCCGCAGCAAGCTCGC+CGG + chr2.3:2780060-2780079 MS.gene76537:CDS 65.0%
AGCCGCCGTGGTTGTGGTGA+TGG - chr2.3:2780113-2780132 None:intergenic 65.0%
AGGTGGCGCTTGAGCGGAAG+TGG - chr2.3:2780259-2780278 None:intergenic 65.0%
CGCTCAAGCGCCACCTACAC+AGG + chr2.3:2780263-2780282 MS.gene76537:CDS 65.0%
CTCCAGCACTGCCGGGGTTT+GGG + chr2.3:2780364-2780383 MS.gene76537:CDS 65.0%
GGGGTTTGGGCGTAGCCCAA+TGG + chr2.3:2780377-2780396 MS.gene76537:CDS 65.0%
TCTCCAGCACTGCCGGGGTT+TGG + chr2.3:2780363-2780382 MS.gene76537:CDS 65.0%
!! CGCCGTGGTTGTGGTGATGG+TGG - chr2.3:2780110-2780129 None:intergenic 65.0%
AGGTGGAGCCGCCGTGGTTG+TGG - chr2.3:2780119-2780138 None:intergenic 70.0%
GTGGTGTGAGCGGCGGCTTG+AGG - chr2.3:2780139-2780158 None:intergenic 70.0%
GTGTGAGCGGCGGCTTGAGG+TGG - chr2.3:2780136-2780155 None:intergenic 70.0%
CGCCCAAACCCCGGCAGTGC+TGG - chr2.3:2780369-2780388 None:intergenic 75.0%
GGCTTGAGGTGGAGCCGCCG+TGG - chr2.3:2780125-2780144 None:intergenic 75.0%


Chromosome Type Strat End Strand Name
chr2.3 gene 2779940 2780527 2779940 ID=MS.gene76537
chr2.3 mRNA 2779940 2780527 2779940 ID=MS.gene76537.t1;Parent=MS.gene76537
chr2.3 exon 2779940 2780527 2779940 ID=MS.gene76537.t1.exon1;Parent=MS.gene76537.t1
chr2.3 CDS 2779940 2780527 2779940 ID=cds.MS.gene76537.t1;Parent=MS.gene76537.t1
Gene Sequence

>MS.gene76537

ATGGAAAGCAATCTACCAGTGATATCAAAGAGAGTGTGGAATATGGTACGTGTAGCCTTCTTCATGTTGAGAAAAGGCATGTCAAAGGGCAAACTAATGATGGGCCTAAACATGATGCTCAAACGCCGCAGCAAGCTCGCCGGAAAAGCCATTGCCAACCTAATGTTCCACCATCACCACAACCACGGCGGCTCCACCTCAAGCCGCCGCTCACACCACCAATTCACCGCATCAAGGGAGTATGAATTCAGCTGTAGCAACACTCCCAACCACTTCTTCCCAATAGGGAAACGTCACCGCAGCCACAACAACTTCTCCACTTCCGCTCAAGCGCCACCTACACAGGATGATGAGGTGGCGACAATGAGCGCAATGAAGGCAGTGTTGGAGATGCTTAACAATGATCAGTCGATTGTAGAAGCATCTCCAGCACTGCCGGGGTTTGGGCGTAGCCCAATGGTGAGGCAATTGAGGGTGACTGACTCACCATTCCCTCTAAGAGAAGATGATGAGAAGGACGATCAAGTTGATAAGGCTGCTGAAGAATTCATAAACAGGTTTTACAGCCAGTTGAGGAAGCAAGCTTGA

Protein sequence

>MS.gene76537.t1

MESNLPVISKRVWNMVRVAFFMLRKGMSKGKLMMGLNMMLKRRSKLAGKAIANLMFHHHHNHGGSTSSRRSHHQFTASREYEFSCSNTPNHFFPIGKRHRSHNNFSTSAQAPPTQDDEVATMSAMKAVLEMLNNDQSIVEASPALPGFGRSPMVRQLRVTDSPFPLREDDEKDDQVDKAAEEFINRFYSQLRKQA