AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene70384

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene70384.t1 MTR_4g094275 91.803 183 9 2 1 181 1 179 2.76e-109 310
MS.gene70384.t1 MTR_2g008520 55.901 161 49 6 5 161 6 148 2.23e-45 147
MS.gene70384.t1 MTR_2g008540 55.901 161 49 6 5 161 6 148 2.23e-45 147
MS.gene70384.t1 MTR_8g081620 33.684 190 98 9 9 175 5 189 6.97e-21 85.5
MS.gene70384.t1 MTR_2g097690 41.026 78 41 2 45 122 65 137 4.86e-12 62.0
MS.gene70384.t1 MTR_2g014470 41.250 80 42 3 53 130 2 78 7.51e-12 62.8
MS.gene70384.t1 MTR_3g061170 40.909 88 47 3 44 128 48 133 7.56e-12 60.8
MS.gene70384.t1 MTR_7g085600 32.667 150 89 4 1 146 3 144 1.68e-11 61.6
MS.gene70384.t1 MTR_2g097690 41.026 78 41 2 45 122 65 137 1.74e-11 61.6
MS.gene70384.t1 MTR_5g012530 45.455 66 35 1 56 121 13 77 1.77e-11 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene70384.t1 AT4G13830 38.462 130 68 4 55 175 66 192 1.80e-21 87.0
MS.gene70384.t1 AT4G13830 47.222 72 36 2 55 126 66 135 5.95e-14 66.2
MS.gene70384.t1 AT4G13830 47.222 72 36 2 55 126 66 135 8.43e-14 66.6
MS.gene70384.t1 AT3G62600 46.753 77 35 3 53 127 24 96 1.02e-11 62.8
MS.gene70384.t1 AT2G20560 37.500 80 45 3 53 130 2 78 1.72e-11 62.0
MS.gene70384.t1 AT1G28210 40.426 94 49 4 55 147 48 135 2.77e-11 61.6
MS.gene70384.t1 AT1G28210 40.426 94 49 4 55 147 48 135 2.88e-11 61.6
MS.gene70384.t1 AT1G28210 40.426 94 49 4 55 147 48 135 3.99e-11 61.2
MS.gene70384.t1 AT2G22360 33.803 142 71 7 2 135 37 163 4.24e-11 61.2
MS.gene70384.t1 AT4G28480 36.905 84 48 3 53 134 2 82 7.12e-11 60.1
MS.gene70384.t1 AT4G28480 36.905 84 48 3 53 134 2 82 7.69e-11 60.1

Find 28 sgRNAs with CRISPR-Local

Find 34 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAACAATATGATAGTGAATT+AGG 0.232905 4.3:-20130038 MS.gene70384:CDS
GTAGAAATTTGATCCATTCT+TGG 0.275553 4.3:+20130241 None:intergenic
TTTAGTTGATTCCTCTTTCA+TGG 0.279301 4.3:+20130115 None:intergenic
AATGCTTAGGCTTGAGGTTA+AGG 0.338721 4.3:+20130376 None:intergenic
AGTAGACGTATGGGACAAAA+AGG 0.403585 4.3:-20129918 MS.gene70384:CDS
ATATTGTAAATGATGAGATA+TGG 0.436536 4.3:-20129986 MS.gene70384:CDS
AAGTGGTTGAGTTGAAGAAA+AGG 0.458554 4.3:-20129944 MS.gene70384:CDS
ATGATGAGATATGGAGAAGT+AGG 0.468838 4.3:-20129977 MS.gene70384:CDS
AAATTTCTACAAAATGTTGT+CGG 0.490774 4.3:-20130228 MS.gene70384:CDS
AAAGAGAGCTTATAGATCAA+TGG 0.492226 4.3:-20130174 MS.gene70384:CDS
GAAAAGGTCTAGTAGACGTA+TGG 0.496414 4.3:-20129928 MS.gene70384:CDS
GCTTTGAATTTGAAATGCTT+AGG 0.497473 4.3:+20130363 None:intergenic
TCATGATCCTTCCATGAAAG+AGG 0.504521 4.3:-20130126 MS.gene70384:CDS
ATTTGAAATGCTTAGGCTTG+AGG 0.508030 4.3:+20130370 None:intergenic
GTTGATTCCTCTTTCATGGA+AGG 0.513452 4.3:+20130119 None:intergenic
GAATCCGAAAAGCGCAACAA+TGG 0.519653 4.3:-20130204 MS.gene70384:CDS
GAAGGATCATGACACACATC+AGG 0.542719 4.3:+20130137 None:intergenic
CTAGTGGAAGAAACCAAGAA+TGG 0.557604 4.3:-20130254 MS.gene70384:CDS
TCATATTGTTCACGAAGCAT+AGG 0.565520 4.3:+20130050 None:intergenic
GGACACAAAGCATGAAAGAT+CGG 0.571745 4.3:-20129872 MS.gene70384:CDS
ATGTAGAGCAACAAAGCTAG+TGG 0.573105 4.3:-20130270 MS.gene70384:CDS
GGTCTTGGGGTAGCAGAATG+AGG 0.576046 4.3:-20129893 MS.gene70384:CDS
AAAAGGTCTAGTAGACGTAT+GGG 0.582302 4.3:-20129927 MS.gene70384:CDS
AGCTGTTTACTAGAGAGTTG+TGG 0.586525 4.3:+20130326 None:intergenic
AAGTAGGTGGCAAGAACAAG+TGG 0.619538 4.3:-20129961 MS.gene70384:CDS
GTTGCAAAGTACACGTGAGT+AGG 0.624184 4.3:+20130299 None:intergenic
ATGAGATATGGAGAAGTAGG+TGG 0.638622 4.3:-20129974 MS.gene70384:CDS
GTTTACTAGAGAGTTGTGGA+AGG 0.676026 4.3:+20130330 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AATCAACTAAAATTTTTGTT+CGG - chr4.3:20130152-20130171 MS.gene70384:CDS 15.0%
!! AAATTTCTACAAAATGTTGT+CGG - chr4.3:20130027-20130046 MS.gene70384:CDS 20.0%
!! ATATTGTAAATGATGAGATA+TGG - chr4.3:20130269-20130288 MS.gene70384:CDS 20.0%
!! GAACAATATGATAGTGAATT+AGG - chr4.3:20130217-20130236 MS.gene70384:CDS 25.0%
AAAGAGAGCTTATAGATCAA+TGG - chr4.3:20130081-20130100 MS.gene70384:CDS 30.0%
GTAGAAATTTGATCCATTCT+TGG + chr4.3:20130017-20130036 None:intergenic 30.0%
! GCTTTGAATTTGAAATGCTT+AGG + chr4.3:20129895-20129914 None:intergenic 30.0%
! TTTAGTTGATTCCTCTTTCA+TGG + chr4.3:20130143-20130162 None:intergenic 30.0%
AAAAGGTCTAGTAGACGTAT+GGG - chr4.3:20130328-20130347 MS.gene70384:CDS 35.0%
ATGATGAGATATGGAGAAGT+AGG - chr4.3:20130278-20130297 MS.gene70384:CDS 35.0%
TCATATTGTTCACGAAGCAT+AGG + chr4.3:20130208-20130227 None:intergenic 35.0%
! ATTTGAAATGCTTAGGCTTG+AGG + chr4.3:20129888-20129907 None:intergenic 35.0%
!! AAGTGGTTGAGTTGAAGAAA+AGG - chr4.3:20130311-20130330 MS.gene70384:CDS 35.0%
AATGCTTAGGCTTGAGGTTA+AGG + chr4.3:20129882-20129901 None:intergenic 40.0%
AGCTGTTTACTAGAGAGTTG+TGG + chr4.3:20129932-20129951 None:intergenic 40.0%
AGTAGACGTATGGGACAAAA+AGG - chr4.3:20130337-20130356 MS.gene70384:CDS 40.0%
ATGAGATATGGAGAAGTAGG+TGG - chr4.3:20130281-20130300 MS.gene70384:CDS 40.0%
ATGTAGAGCAACAAAGCTAG+TGG - chr4.3:20129985-20130004 MS.gene70384:CDS 40.0%
CTAGTGGAAGAAACCAAGAA+TGG - chr4.3:20130001-20130020 MS.gene70384:CDS 40.0%
GAAAAGGTCTAGTAGACGTA+TGG - chr4.3:20130327-20130346 MS.gene70384:CDS 40.0%
GGACACAAAGCATGAAAGAT+CGG - chr4.3:20130383-20130402 MS.gene70384:CDS 40.0%
GTTTACTAGAGAGTTGTGGA+AGG + chr4.3:20129928-20129947 None:intergenic 40.0%
TCATGATCCTTCCATGAAAG+AGG - chr4.3:20130129-20130148 MS.gene70384:CDS 40.0%
! GTTGATTCCTCTTTCATGGA+AGG + chr4.3:20130139-20130158 None:intergenic 40.0%
! TCTTCCATTGTTGCGCTTTT+CGG + chr4.3:20130058-20130077 None:intergenic 40.0%
AAGTAGGTGGCAAGAACAAG+TGG - chr4.3:20130294-20130313 MS.gene70384:CDS 45.0%
GAAGGATCATGACACACATC+AGG + chr4.3:20130121-20130140 None:intergenic 45.0%
GACGTATGGGACAAAAAGGA+AGG - chr4.3:20130341-20130360 MS.gene70384:CDS 45.0%
GGACAAAAAGGAAGGTCTTG+GGG - chr4.3:20130349-20130368 MS.gene70384:CDS 45.0%
GGGACAAAAAGGAAGGTCTT+GGG - chr4.3:20130348-20130367 MS.gene70384:CDS 45.0%
GTTGCAAAGTACACGTGAGT+AGG + chr4.3:20129959-20129978 None:intergenic 45.0%
TGGGACAAAAAGGAAGGTCT+TGG - chr4.3:20130347-20130366 MS.gene70384:CDS 45.0%
! GAATCCGAAAAGCGCAACAA+TGG - chr4.3:20130051-20130070 MS.gene70384:CDS 45.0%
GGTCTTGGGGTAGCAGAATG+AGG - chr4.3:20130362-20130381 MS.gene70384:CDS 55.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 20129866 20130411 20129866 ID=MS.gene70384
chr4.3 mRNA 20129866 20130411 20129866 ID=MS.gene70384.t1;Parent=MS.gene70384
chr4.3 exon 20129866 20130411 20129866 ID=MS.gene70384.t1.exon1;Parent=MS.gene70384.t1
chr4.3 CDS 20129866 20130411 20129866 ID=cds.MS.gene70384.t1;Parent=MS.gene70384.t1
Gene Sequence

>MS.gene70384

ATGAATGCTTCATCCTTAACCTCAAGCCTAAGCATTTCAAATTCAAAGCAATTTCATCACCTTCCACAACTCTCTAGTAAACAGCTAAGACCTACTCACGTGTACTTTGCAACAATTTTATGTAGAGCAACAAAGCTAGTGGAAGAAACCAAGAATGGATCAAATTTCTACAAAATGTTGTCGGTGAATCCGAAAAGCGCAACAATGGAAGAAATAAAGAGAGCTTATAGATCAATGGCACTTCAGTATCATCCTGATGTGTGTCATGATCCTTCCATGAAAGAGGAATCAACTAAAATTTTTGTTCGGTTAAATGCAGCTTATGAAACTTTGTCAAATCCTATGCTTCGTGAACAATATGATAGTGAATTAGGTTTGAGAAACAACATGATGAATAATAATAATATTGTAAATGATGAGATATGGAGAAGTAGGTGGCAAGAACAAGTGGTTGAGTTGAAGAAAAGGTCTAGTAGACGTATGGGACAAAAAGGAAGGTCTTGGGGTAGCAGAATGAGGACACAAAGCATGAAAGATCGGAACTAA
Protein sequence

>MS.gene70384.t1

MNASSLTSSLSISNSKQFHHLPQLSSKQLRPTHVYFATILCRATKLVEETKNGSNFYKMLSVNPKSATMEEIKRAYRSMALQYHPDVCHDPSMKEESTKIFVRLNAAYETLSNPMLREQYDSELGLRNNMMNNNNIVNDEIWRSRWQEQVVELKKRSSRRMGQKGRSWGSRMRTQSMKDRN