AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene98668

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene98668.t1 MTR_4g052060 95.000 160 8 0 1 160 1 160 1.69e-110 312
MS.gene98668.t1 MTR_4g052040 72.619 168 38 3 1 161 1 167 1.17e-73 218
MS.gene98668.t1 MTR_5g079710 44.654 159 82 4 4 161 6 159 3.00e-32 115
MS.gene98668.t1 MTR_7g105790 36.000 175 89 2 1 155 1 172 2.60e-23 91.3
MS.gene98668.t1 MTR_0907s0020 59.701 67 27 0 95 161 104 170 6.14e-22 87.4
MS.gene98668.t1 MTR_8g103520 42.667 75 43 0 86 160 217 291 6.36e-13 65.1
MS.gene98668.t1 MTR_5g075210 49.180 61 31 0 96 156 283 343 4.22e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene98668.t1 AT3G52525 59.091 66 26 1 89 153 61 126 1.71e-20 82.8
MS.gene98668.t1 AT2G36026 59.016 61 25 0 98 158 91 151 6.47e-19 79.3
MS.gene98668.t1 AT5G22240 37.864 103 60 2 58 159 63 162 6.28e-13 63.9
MS.gene98668.t1 AT5G19650 44.776 67 37 0 92 158 153 219 1.45e-12 63.5

Find 32 sgRNAs with CRISPR-Local

Find 32 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATTTGGCTAATGGAAATTT+TGG 0.176660 4.2:+50103021 None:intergenic
TGGATGAAGCCTTGCTAATT+TGG 0.245892 4.2:+50103005 None:intergenic
GCTTCATCCAACACAACTTT+AGG 0.315005 4.2:-50102992 MS.gene98668:CDS
AGCCTTGCTAATTTGGCTAA+TGG 0.359333 4.2:+50103012 None:intergenic
AGAGTGTTCTCAACAAATAT+TGG 0.365412 4.2:-50103100 MS.gene98668:CDS
AAACACTGTGGTTGTTGAAA+AGG 0.406424 4.2:-50102855 MS.gene98668:CDS
GAGTGCTTGAAATCATGATA+TGG 0.426047 4.2:+50102821 None:intergenic
ATGATCTTCGAGTTCTTCTT+CGG 0.426591 4.2:-50102757 MS.gene98668:CDS
ACAACCACAGTGTTTGATAG+AGG 0.460583 4.2:+50102863 None:intergenic
CACAACTTTAGGTGAAAGAA+AGG 0.468235 4.2:-50102981 MS.gene98668:CDS
TCTTTCACCTAAAGTTGTGT+TGG 0.468817 4.2:+50102985 None:intergenic
GCTGTGGTCGACGCTACAAC+CGG 0.476684 4.2:+50102955 None:intergenic
AGCTTCAGAGAAAGTGGTGG+TGG 0.499280 4.2:+50102922 None:intergenic
TATGCTTCAAATGATCTTCG+AGG 0.503327 4.2:-50102798 MS.gene98668:CDS
TCAACAAATATTGGAAGTTG+TGG 0.506051 4.2:-50103091 MS.gene98668:CDS
GTAGTAGTACAAACCTTGTC+GGG 0.514681 4.2:+50102656 None:intergenic
TGTTTCAGCTTCAGAGAAAG+TGG 0.518295 4.2:+50102916 None:intergenic
GTTTGATAGAGGGCTATGCT+TGG 0.522411 4.2:+50102874 None:intergenic
TTCCATTAGCCAAATTAGCA+AGG 0.533087 4.2:-50103014 MS.gene98668:CDS
TTTGATAGAGGGCTATGCTT+GGG 0.544333 4.2:+50102875 None:intergenic
AGTACACGAGCCTATTCAAA+AGG 0.546512 4.2:-50103044 MS.gene98668:CDS
CTTCGAGGATGAGATCGATT+CGG 0.564919 4.2:-50102783 MS.gene98668:CDS
GATAGAGGGCTATGCTTGGG+TGG 0.581428 4.2:+50102878 None:intergenic
AGTAGTAGTACAAACCTTGT+CGG 0.598934 4.2:+50102655 None:intergenic
CAACCACAGTGTTTGATAGA+GGG 0.606410 4.2:+50102864 None:intergenic
TTAGGTGAAAGAAAGGGTGC+CGG 0.615123 4.2:-50102974 MS.gene98668:CDS
ACAACTTTAGGTGAAAGAAA+GGG 0.626599 4.2:-50102980 MS.gene98668:CDS
TTCAGCTTCAGAGAAAGTGG+TGG 0.661349 4.2:+50102919 None:intergenic
CGAGGATGAGATCGATTCGG+AGG 0.665085 4.2:-50102780 MS.gene98668:CDS
TAAAGACTTTAACGATGACA+AGG 0.672661 4.2:+50102702 None:intergenic
TGGTGGAGAAATCGTCGCTG+TGG 0.708398 4.2:+50102939 None:intergenic
TAGCCCTCTATCAAACACTG+TGG 0.798981 4.2:-50102867 MS.gene98668:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTTGGCTAATGGAAATTT+TGG + chr4.2:50102782-50102801 None:intergenic 25.0%
ACAACTTTAGGTGAAAGAAA+GGG - chr4.2:50102820-50102839 MS.gene98668:CDS 30.0%
TAAAGACTTTAACGATGACA+AGG + chr4.2:50103101-50103120 None:intergenic 30.0%
TCAACAAATATTGGAAGTTG+TGG - chr4.2:50102709-50102728 MS.gene98668:CDS 30.0%
! AGAGTGTTCTCAACAAATAT+TGG - chr4.2:50102700-50102719 MS.gene98668:CDS 30.0%
!! GAAATTTTGGCCTTTTGAAT+AGG + chr4.2:50102769-50102788 None:intergenic 30.0%
AAACACTGTGGTTGTTGAAA+AGG - chr4.2:50102945-50102964 MS.gene98668:CDS 35.0%
CACAACTTTAGGTGAAAGAA+AGG - chr4.2:50102819-50102838 MS.gene98668:CDS 35.0%
GAGTGCTTGAAATCATGATA+TGG + chr4.2:50102982-50103001 None:intergenic 35.0%
TATGCTTCAAATGATCTTCG+AGG - chr4.2:50103002-50103021 MS.gene98668:CDS 35.0%
TCTTTCACCTAAAGTTGTGT+TGG + chr4.2:50102818-50102837 None:intergenic 35.0%
TTCCATTAGCCAAATTAGCA+AGG - chr4.2:50102786-50102805 MS.gene98668:CDS 35.0%
! ATGATCTTCGAGTTCTTCTT+CGG - chr4.2:50103043-50103062 MS.gene98668:CDS 35.0%
! TCTCACAAGTCTTTTCTTGT+TGG + chr4.2:50102680-50102699 None:intergenic 35.0%
ACAACCACAGTGTTTGATAG+AGG + chr4.2:50102940-50102959 None:intergenic 40.0%
AGCCTTGCTAATTTGGCTAA+TGG + chr4.2:50102791-50102810 None:intergenic 40.0%
AGTACACGAGCCTATTCAAA+AGG - chr4.2:50102756-50102775 MS.gene98668:CDS 40.0%
CAACCACAGTGTTTGATAGA+GGG + chr4.2:50102939-50102958 None:intergenic 40.0%
GCTTCATCCAACACAACTTT+AGG - chr4.2:50102808-50102827 MS.gene98668:CDS 40.0%
TGGATGAAGCCTTGCTAATT+TGG + chr4.2:50102798-50102817 None:intergenic 40.0%
TGTTTCAGCTTCAGAGAAAG+TGG + chr4.2:50102887-50102906 None:intergenic 40.0%
TTTGATAGAGGGCTATGCTT+GGG + chr4.2:50102928-50102947 None:intergenic 40.0%
CTTCGAGGATGAGATCGATT+CGG - chr4.2:50103017-50103036 MS.gene98668:CDS 45.0%
GTTTGATAGAGGGCTATGCT+TGG + chr4.2:50102929-50102948 None:intergenic 45.0%
TAGCCCTCTATCAAACACTG+TGG - chr4.2:50102933-50102952 MS.gene98668:CDS 45.0%
TTCAGCTTCAGAGAAAGTGG+TGG + chr4.2:50102884-50102903 None:intergenic 45.0%
! TTAGGTGAAAGAAAGGGTGC+CGG - chr4.2:50102826-50102845 MS.gene98668:CDS 45.0%
AGCTTCAGAGAAAGTGGTGG+TGG + chr4.2:50102881-50102900 None:intergenic 50.0%
GATAGAGGGCTATGCTTGGG+TGG + chr4.2:50102925-50102944 None:intergenic 55.0%
TGGTGGAGAAATCGTCGCTG+TGG + chr4.2:50102864-50102883 None:intergenic 55.0%
!! CGAGGATGAGATCGATTCGG+AGG - chr4.2:50103020-50103039 MS.gene98668:CDS 55.0%
GCTGTGGTCGACGCTACAAC+CGG + chr4.2:50102848-50102867 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 50102670 50103152 50102670 ID=MS.gene98668
chr4.2 mRNA 50102670 50103152 50102670 ID=MS.gene98668.t1;Parent=MS.gene98668
chr4.2 exon 50102670 50103152 50102670 ID=MS.gene98668.t1.exon1;Parent=MS.gene98668.t1
chr4.2 CDS 50102670 50103152 50102670 ID=cds.MS.gene98668.t1;Parent=MS.gene98668.t1
Gene Sequence

>MS.gene98668

ATGTCTTCCAACAAGAAAAGACTTGTGAGAAGAGTGTTCTCAACAAATATTGGAAGTTGTGGCTGTGCAAAAAAGAAAGCAATTGTAGTACACGAGCCTATTCAAAAGGCCAAAATTTCCATTAGCCAAATTAGCAAGGCTTCATCCAACACAACTTTAGGTGAAAGAAAGGGTGCCGGTTGTAGCGTCGACCACAGCGACGATTTCTCCACCACCACTTTCTCTGAAGCTGAAACAACTCAAAACTATTCTCCACCCAAGCATAGCCCTCTATCAAACACTGTGGTTGTTGAAAAGGATTCTGACGATCCATATCATGATTTCAAGCACTCTATGCTTCAAATGATCTTCGAGGATGAGATCGATTCGGAGGATGATCTTCGAGTTCTTCTTCGGTGTTTTCTTCATCTCAATGATACTTATTATCACCTTGTCATCGTTAAAGTCTTTAATGATATATGTCATGAAGCTTTTCCCGACAAG
Protein sequence

>MS.gene98668.t1

MSSNKKRLVRRVFSTNIGSCGCAKKKAIVVHEPIQKAKISISQISKASSNTTLGERKGAGCSVDHSDDFSTTTFSEAETTQNYSPPKHSPLSNTVVVEKDSDDPYHDFKHSMLQMIFEDEIDSEDDLRVLLRCFLHLNDTYYHLVIVKVFNDICHEAFPDK