AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene033050

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene033050.t1 MTR_4g109660 98.758 161 1 1 1 160 1 161 7.15e-103 301
MS.gene033050.t1 MTR_4g109660 91.667 84 7 0 161 244 222 305 3.73e-46 156
MS.gene033050.t1 MTR_3g026050 70.455 132 35 3 4 132 3 133 1.12e-54 180
MS.gene033050.t1 MTR_7g015010 60.504 119 44 2 1 117 1 118 1.85e-43 150
MS.gene033050.t1 MTR_6g015350 71.429 84 24 0 38 121 31 114 8.52e-38 135
MS.gene033050.t1 MTR_8g463380 52.809 89 42 0 29 117 27 115 1.77e-22 95.5
MS.gene033050.t1 MTR_4g079580 54.321 81 37 0 49 129 15 95 2.78e-22 94.0
MS.gene033050.t1 MTR_2g090960 60.870 69 27 0 49 117 17 85 1.62e-21 91.7
MS.gene033050.t1 MTR_2g078200 58.824 68 28 0 50 117 14 81 2.09e-20 88.2
MS.gene033050.t1 MTR_1g103380 50.000 60 30 0 55 114 200 259 1.35e-12 67.0
MS.gene033050.t1 MTR_7g018500 49.123 57 29 0 58 114 122 178 2.14e-12 66.2
MS.gene033050.t1 MTR_6g017055 48.276 58 30 0 57 114 127 184 2.43e-12 66.2
MS.gene033050.t1 MTR_4g111935 48.276 58 30 0 57 114 133 190 5.82e-12 65.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene033050.t1 AT5G60970 80.682 88 16 1 39 125 45 132 1.37e-46 159
MS.gene033050.t1 AT3G02150 48.171 164 75 4 10 163 28 191 4.95e-41 142
MS.gene033050.t1 AT3G02150 48.171 164 75 4 10 163 28 191 1.76e-40 142
MS.gene033050.t1 AT5G08070 75.610 82 20 0 44 125 21 102 4.52e-40 139
MS.gene033050.t1 AT5G08070 75.610 82 20 0 44 125 21 102 4.52e-40 139
MS.gene033050.t1 AT1G30210 55.752 113 44 3 8 118 4 112 1.39e-30 116
MS.gene033050.t1 AT1G30210 55.752 113 44 3 8 118 4 112 1.39e-30 116
MS.gene033050.t1 AT4G18390 68.493 73 23 0 46 118 32 104 1.29e-28 111
MS.gene033050.t1 AT4G18390 68.493 73 23 0 46 118 32 104 1.29e-28 111
MS.gene033050.t1 AT1G53230 56.790 81 32 1 49 126 42 122 1.64e-23 98.2
MS.gene033050.t1 AT1G53230 56.790 81 32 1 49 126 42 122 1.64e-23 98.2
MS.gene033050.t1 AT3G15030 60.870 69 27 0 49 117 38 106 2.47e-22 95.1
MS.gene033050.t1 AT3G15030 60.870 69 27 0 49 117 38 106 2.47e-22 95.1
MS.gene033050.t1 AT3G15030 60.870 69 27 0 49 117 38 106 2.47e-22 95.1
MS.gene033050.t1 AT3G15030 60.870 69 27 0 49 117 38 106 2.47e-22 95.1
MS.gene033050.t1 AT2G31070 60.606 66 26 0 49 114 22 87 1.15e-20 89.7
MS.gene033050.t1 AT1G68800 46.269 67 36 0 48 114 104 170 8.04e-15 73.2
MS.gene033050.t1 AT1G68800 46.269 67 36 0 48 114 104 170 8.46e-15 73.2
MS.gene033050.t1 AT1G67260 41.429 70 41 0 45 114 76 145 7.14e-14 70.5
MS.gene033050.t1 AT1G67260 41.429 70 41 0 45 114 76 145 7.14e-14 70.5
MS.gene033050.t1 AT1G67260 41.429 70 41 0 45 114 76 145 8.65e-14 70.5
MS.gene033050.t1 AT3G18550 39.024 82 49 1 33 114 126 206 2.47e-12 66.2
MS.gene033050.t1 AT3G18550 39.024 82 49 1 33 114 126 206 2.66e-12 66.2
MS.gene033050.t1 AT3G18550 39.024 82 49 1 33 114 126 206 2.66e-12 66.2
MS.gene033050.t1 AT3G18550 39.024 82 49 1 33 114 126 206 3.27e-12 65.9

Find 46 sgRNAs with CRISPR-Local

Find 62 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGTCTAAACGGCGAATTTAT+TGG 0.202116 8.2:+16250007 None:intergenic
CGTGACACTCTCACTATTCT+TGG 0.252002 8.2:+16250718 None:intergenic
TACTACCTGGTTGCTGAAAT+AGG 0.258592 8.2:+16250467 None:intergenic
CTACCATAACTACCCATTTC+TGG 0.267833 8.2:+16249934 None:intergenic
AGCAAAGTTTGCACAATTAG+AGG 0.305586 8.2:-16250670 MS.gene033050:CDS
TGATGTAGCTATTGCTTTGT+TGG 0.307657 8.2:+16250765 None:intergenic
GTGAGAGTGTCACGTTCTTT+AGG 0.317533 8.2:-16250709 MS.gene033050:CDS
GATGATAATAACACCAGAAA+TGG 0.330153 8.2:-16249947 MS.gene033050:CDS
AATTCACTACTTTCCATTGA+TGG 0.341892 8.2:+16250103 None:intergenic
GATTAAGAGACCGTAGGATT+AGG 0.348209 8.2:-16250648 MS.gene033050:CDS
TGTGAATTACCAGATGAATT+AGG 0.362279 8.2:+16250187 None:intergenic
ACTACCTGGTTGCTGAAATA+GGG 0.363637 8.2:+16250468 None:intergenic
AGAAGCTGAAAGTTCAGAAA+AGG 0.433467 8.2:-16250392 MS.gene033050:CDS
TACTCTGAATGCTCCATCAA+TGG 0.441615 8.2:-16250116 MS.gene033050:CDS
GTTCAAGATTTGAACATGGT+TGG 0.449373 8.2:+16250069 None:intergenic
TATGGTATGAATCAAACTAA+AGG 0.451228 8.2:-16250418 MS.gene033050:CDS
TTGACAGTACCTAATTCATC+TGG 0.458238 8.2:-16250196 MS.gene033050:intron
AACCTAGCAAAGTTGTTGAA+TGG 0.462940 8.2:-16250567 MS.gene033050:CDS
AGTGTTGGATGGCGTCTAAA+CGG 0.463809 8.2:+16249995 None:intergenic
ATCATCTGAATCAAGAAGCT+TGG 0.472188 8.2:+16249964 None:intergenic
TGAACATGGTTGGATTGTCT+TGG 0.473682 8.2:+16250079 None:intergenic
TTTATTGGAAGATGAATAGC+TGG 0.479910 8.2:+16250022 None:intergenic
ATGATAATAACACCAGAAAT+GGG 0.506853 8.2:-16249946 MS.gene033050:CDS
ATGAAAGAACCATTACTTGA+GGG 0.508573 8.2:+16250046 None:intergenic
AGAAGGTGAACATGGAAGAA+TGG 0.508923 8.2:-16250803 MS.gene033050:CDS
TGTTGTTGAGTGAAACTTTG+AGG 0.510713 8.2:+16250493 None:intergenic
AACCATTCAACAACTTTGCT+AGG 0.525009 8.2:+16250565 None:intergenic
GAAGCTGAAAGTTCAGAAAA+GGG 0.530447 8.2:-16250391 MS.gene033050:intron
AGCTTGGAACTAAACAGTGT+TGG 0.544286 8.2:+16249980 None:intergenic
TATGATCTTCAAGACAGACT+TGG 0.562288 8.2:-16250598 MS.gene033050:CDS
ATCTTGAACCCCTCAAGTAA+TGG 0.568276 8.2:-16250055 MS.gene033050:CDS
AGAGTGTCACGTTCTTTAGG+AGG 0.573587 8.2:-16250706 MS.gene033050:CDS
TCATATAGCTGAATTGCTGT+TGG 0.578184 8.2:+16250616 None:intergenic
ACAAAACAAGAAGGTGAACA+TGG 0.590894 8.2:-16250811 MS.gene033050:CDS
AAAGAAGCAACAAAACAAGA+AGG 0.599775 8.2:-16250820 MS.gene033050:CDS
GTACAGACAACCTAATCCTA+CGG 0.604529 8.2:+16250638 None:intergenic
TGAAAGAACCATTACTTGAG+GGG 0.615132 8.2:+16250047 None:intergenic
GATGGCAATGGCATAACAGA+AGG 0.624451 8.2:+16250151 None:intergenic
AATGAAAGAACCATTACTTG+AGG 0.626114 8.2:+16250045 None:intergenic
TGGAACTAAACAGTGTTGGA+TGG 0.631286 8.2:+16249984 None:intergenic
AAACTTTGAGGAATATCAAG+TGG 0.636206 8.2:+16250505 None:intergenic
CAATAGCTACATCAAGACAA+TGG 0.639730 8.2:-16250756 MS.gene033050:CDS
CTTTGAGGAATATCAAGTGG+TGG 0.640320 8.2:+16250508 None:intergenic
CAAACCCTATTTCAGCAACC+AGG 0.642234 8.2:-16250472 MS.gene033050:CDS
TTAGAGGATTAAGAGACCGT+AGG 0.643012 8.2:-16250654 MS.gene033050:CDS
AGGGGTTCAAGATTTGAACA+TGG 0.658690 8.2:+16250065 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATACTAATTATTCATCAAA+TGG - chr8.2:16250435-16250454 MS.gene033050:CDS 15.0%
!! GAAATAAATTACCATGATTA+TGG + chr8.2:16250521-16250540 None:intergenic 20.0%
!!! TTTTCCTTTTCCATATAAAT+TGG - chr8.2:16250458-16250477 MS.gene033050:CDS 20.0%
! ACTCTATCTTTATCACAATT+TGG - chr8.2:16250492-16250511 MS.gene033050:CDS 25.0%
! ATGATAATAACACCAGAAAT+GGG - chr8.2:16250847-16250866 MS.gene033050:CDS 25.0%
! CTAGTACTTATTTGATAAGA+AGG + chr8.2:16250543-16250562 None:intergenic 25.0%
! TATGGTATGAATCAAACTAA+AGG - chr8.2:16250375-16250394 MS.gene033050:intron 25.0%
! TCTTATCAAATAAGTACTAG+TGG - chr8.2:16250543-16250562 MS.gene033050:CDS 25.0%
AAAGAAGCAACAAAACAAGA+AGG - chr8.2:16249973-16249992 MS.gene033050:CDS 30.0%
AATGAAAGAACCATTACTTG+AGG + chr8.2:16250751-16250770 None:intergenic 30.0%
AATTCACTACTTTCCATTGA+TGG + chr8.2:16250693-16250712 None:intergenic 30.0%
ATGAAAGAACCATTACTTGA+GGG + chr8.2:16250750-16250769 None:intergenic 30.0%
CTTGAAGGATCCAATTTATA+TGG + chr8.2:16250471-16250490 None:intergenic 30.0%
GATGATAATAACACCAGAAA+TGG - chr8.2:16250846-16250865 MS.gene033050:CDS 30.0%
GGATCCAATTTATATGGAAA+AGG + chr8.2:16250465-16250484 None:intergenic 30.0%
TGTGAATTACCAGATGAATT+AGG + chr8.2:16250609-16250628 None:intergenic 30.0%
TTTATTGGAAGATGAATAGC+TGG + chr8.2:16250774-16250793 None:intergenic 30.0%
! AAACTTTGAGGAATATCAAG+TGG + chr8.2:16250291-16250310 None:intergenic 30.0%
! AGAGTACTAGTAAAAAGTGA+TGG + chr8.2:16250663-16250682 None:intergenic 30.0%
! GATAAAGATAGAGTACTTGA+AGG + chr8.2:16250486-16250505 None:intergenic 30.0%
AACCATTCAACAACTTTGCT+AGG + chr8.2:16250231-16250250 None:intergenic 35.0%
AACCTAGCAAAGTTGTTGAA+TGG - chr8.2:16250226-16250245 MS.gene033050:intron 35.0%
ACAAAACAAGAAGGTGAACA+TGG - chr8.2:16249982-16250001 MS.gene033050:CDS 35.0%
AGAAGCTGAAAGTTCAGAAA+AGG - chr8.2:16250401-16250420 MS.gene033050:CDS 35.0%
AGAGAAAAACAAGTACTACC+TGG + chr8.2:16250342-16250361 None:intergenic 35.0%
AGCAAAGTTTGCACAATTAG+AGG - chr8.2:16250123-16250142 MS.gene033050:CDS 35.0%
ATCATCTGAATCAAGAAGCT+TGG + chr8.2:16250832-16250851 None:intergenic 35.0%
CAATAGCTACATCAAGACAA+TGG - chr8.2:16250037-16250056 MS.gene033050:CDS 35.0%
CAATTTGGAAGCCATAATCA+TGG - chr8.2:16250507-16250526 MS.gene033050:CDS 35.0%
CTAGTAAAAAGTGATGGCAA+TGG + chr8.2:16250657-16250676 None:intergenic 35.0%
GAAGCTGAAAGTTCAGAAAA+GGG - chr8.2:16250402-16250421 MS.gene033050:CDS 35.0%
GTTCAAGATTTGAACATGGT+TGG + chr8.2:16250727-16250746 None:intergenic 35.0%
TATGATCTTCAAGACAGACT+TGG - chr8.2:16250195-16250214 MS.gene033050:intron 35.0%
TCATATAGCTGAATTGCTGT+TGG + chr8.2:16250180-16250199 None:intergenic 35.0%
TGAAAGAACCATTACTTGAG+GGG + chr8.2:16250749-16250768 None:intergenic 35.0%
TGATGTAGCTATTGCTTTGT+TGG + chr8.2:16250031-16250050 None:intergenic 35.0%
TGTTGTTGAGTGAAACTTTG+AGG + chr8.2:16250303-16250322 None:intergenic 35.0%
TTGACAGTACCTAATTCATC+TGG - chr8.2:16250597-16250616 MS.gene033050:CDS 35.0%
!! AGTACTTGTTTTTCTCTTGG+AGG - chr8.2:16250345-16250364 MS.gene033050:intron 35.0%
!! GGTAGTACTTGTTTTTCTCT+TGG - chr8.2:16250342-16250361 MS.gene033050:intron 35.0%
ACTACCTGGTTGCTGAAATA+GGG + chr8.2:16250328-16250347 None:intergenic 40.0%
AGAAGGTGAACATGGAAGAA+TGG - chr8.2:16249990-16250009 MS.gene033050:CDS 40.0%
AGCTTGGAACTAAACAGTGT+TGG + chr8.2:16250816-16250835 None:intergenic 40.0%
AGGGGTTCAAGATTTGAACA+TGG + chr8.2:16250731-16250750 None:intergenic 40.0%
ATCTTGAACCCCTCAAGTAA+TGG - chr8.2:16250738-16250757 MS.gene033050:CDS 40.0%
CGTCTAAACGGCGAATTTAT+TGG + chr8.2:16250789-16250808 None:intergenic 40.0%
GATTAAGAGACCGTAGGATT+AGG - chr8.2:16250145-16250164 MS.gene033050:CDS 40.0%
GTACAGACAACCTAATCCTA+CGG + chr8.2:16250158-16250177 None:intergenic 40.0%
TACTACCTGGTTGCTGAAAT+AGG + chr8.2:16250329-16250348 None:intergenic 40.0%
TACTCTGAATGCTCCATCAA+TGG - chr8.2:16250677-16250696 MS.gene033050:CDS 40.0%
TGAACATGGTTGGATTGTCT+TGG + chr8.2:16250717-16250736 None:intergenic 40.0%
TTAGAGGATTAAGAGACCGT+AGG - chr8.2:16250139-16250158 MS.gene033050:CDS 40.0%
! CTTTGAGGAATATCAAGTGG+TGG + chr8.2:16250288-16250307 None:intergenic 40.0%
! TCTCTTGGAGGTGGTTTTTA+TGG - chr8.2:16250357-16250376 MS.gene033050:intron 40.0%
! TGGAACTAAACAGTGTTGGA+TGG + chr8.2:16250812-16250831 None:intergenic 40.0%
!! ACTTGTTTTTCTCTTGGAGG+TGG - chr8.2:16250348-16250367 MS.gene033050:intron 40.0%
CAAACCCTATTTCAGCAACC+AGG - chr8.2:16250321-16250340 MS.gene033050:intron 45.0%
CGTGACACTCTCACTATTCT+TGG + chr8.2:16250078-16250097 None:intergenic 45.0%
GATGGCAATGGCATAACAGA+AGG + chr8.2:16250645-16250664 None:intergenic 45.0%
! AGAGTGTCACGTTCTTTAGG+AGG - chr8.2:16250087-16250106 MS.gene033050:CDS 45.0%
! AGTGTTGGATGGCGTCTAAA+CGG + chr8.2:16250801-16250820 None:intergenic 45.0%
!! GTGAGAGTGTCACGTTCTTT+AGG - chr8.2:16250084-16250103 MS.gene033050:CDS 45.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 16249943 16250872 16249943 ID=MS.gene033050
chr8.2 mRNA 16249943 16250872 16249943 ID=MS.gene033050.t1;Parent=MS.gene033050
chr8.2 exon 16250392 16250872 16250392 ID=MS.gene033050.t1.exon1;Parent=MS.gene033050.t1
chr8.2 CDS 16250392 16250872 16250392 ID=cds.MS.gene033050.t1;Parent=MS.gene033050.t1
chr8.2 exon 16249943 16250211 16249943 ID=MS.gene033050.t1.exon2;Parent=MS.gene033050.t1
chr8.2 CDS 16249943 16250211 16249943 ID=cds.MS.gene033050.t1;Parent=MS.gene033050.t1
Gene Sequence

>MS.gene033050

ATGATAGAAAGTTCAAGTAAAGATTATAACAAAGAAGCAACAAAACAAGAAGGTGAACATGGAAGAATGGAATCAGAGAAATTCTCCAACAAAGCAATAGCTACATCAAGACAATGGACATCATTAAGAAATCCAAGAATAGTGAGAGTGTCACGTTCTTTAGGAGGAAAAGACAGACACAGCAAAGTTTGCACAATTAGAGGATTAAGAGACCGTAGGATTAGGTTGTCTGTACCAACAGCAATTCAGCTATATGATCTTCAAGACAGACTTGGTTTAAGTCAACCTAGCAAAGTTGTTGAATGGTTAATTGAAGCAACTCAATCTGATATTGATAAATTACCACCACTTGATATTCCTCAAAGTTTCACTCAACAACAAACCCTATTTCAGCAACCAGGTAGTACTTGTTTTTCTCTTGGAGGTGGTTTTTATGGTATGAATCAAACTAAAGGTAAAGAAGCTGAAAGTTCAGAAAAGGGTAATTATTATAATACTAATTATTCATCAAATGGTTTTCCTTTTCCATATAAATTGGATCCTTCAAGTACTCTATCTTTATCACAATTTGGAAGCCATAATCATGGTAATTTATTTCCTTCTTATCAAATAAGTACTAGTGGCAGTGATATGCAATTTTCATCATCTTCAAATTTGACAGTACCTAATTCATCTGGTAATTCACAGTTACTTTTGTGTCCTTCTGTTATGCCATTGCCATCACTTTTTACTAGTACTCTGAATGCTCCATCAATGGAAAGTAGTGAATTTCCAAGACAATCCAACCATGTTCAAATCTTGAACCCCTCAAGTAATGGTTCTTTCATTCCAGCTATTCATCTTCCAATAAATTCGCCGTTTAGACGCCATCCAACACTGTTTAGTTCCAAGCTTCTTGATTCAGATGATAATAACACCAGAAATGGGTAG
Protein sequence

>MS.gene033050.t1

MIESSSKDYNKEATKQEGEHGRMESEKFSNKAIATSRQWTSLRNPRIVRVSRSLGGKDRHSKVCTIRGLRDRRIRLSVPTAIQLYDLQDRLGLSQPSKVVEWLIEATQSDIDKLPPLDIPQSFTQQQTLFQQPGSTCFSLGGGFYGMNQTKGKEAESSEKVPNSSGNSQLLLCPSVMPLPSLFTSTLNAPSMESSEFPRQSNHVQILNPSSNGSFIPAIHLPINSPFRRHPTLFSSKLLDSDDNNTRNG