AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene62014

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene62014.t1 MTR_7g017880 99.387 163 1 0 1 163 29 191 3.83e-118 332
MS.gene62014.t1 MTR_6g016375 73.050 141 34 3 13 149 41 181 6.45e-58 179
MS.gene62014.t1 MTR_7g029400 64.179 134 43 4 32 162 57 188 1.20e-48 155
MS.gene62014.t1 MTR_8g015250 59.864 147 52 6 19 162 35 177 1.91e-45 147
MS.gene62014.t1 MTR_4g070860 52.326 86 38 2 42 127 16 98 1.38e-17 75.5
MS.gene62014.t1 MTR_1g022495 44.330 97 54 0 33 129 4 100 5.99e-17 73.9
MS.gene62014.t1 MTR_3g117120 50.000 80 40 0 48 127 19 98 1.92e-16 72.4
MS.gene62014.t1 MTR_4g097440 33.974 156 85 3 9 146 7 162 3.22e-16 72.0
MS.gene62014.t1 MTR_1g087040 37.405 131 70 4 34 158 7 131 9.36e-14 65.1
MS.gene62014.t1 MTR_5g015090 37.705 122 71 2 28 144 25 146 9.59e-13 62.8
MS.gene62014.t1 MTR_5g028850 37.736 106 61 2 26 126 272 377 3.41e-11 60.8
MS.gene62014.t1 MTR_5g028850 37.736 106 61 2 26 126 270 375 4.04e-11 60.5
MS.gene62014.t1 MTR_8g086020 32.292 96 65 0 32 127 8 103 7.30e-11 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene62014.t1 AT3G30530 58.784 148 49 4 9 148 24 167 7.80e-48 153
MS.gene62014.t1 AT5G38800 57.042 142 56 3 11 148 20 160 2.14e-43 141
MS.gene62014.t1 AT2G04038 64.583 96 34 0 39 134 54 149 1.37e-36 124
MS.gene62014.t1 AT5G15830 61.616 99 38 0 37 135 52 150 3.70e-35 121
MS.gene62014.t1 AT1G13600 59.184 98 39 1 40 137 68 164 3.22e-34 119
MS.gene62014.t1 AT1G68880 44.348 115 59 1 23 137 16 125 9.28e-24 90.9
MS.gene62014.t1 AT5G60830 51.724 87 41 1 51 136 62 148 4.74e-19 80.5
MS.gene62014.t1 AT2G18160 50.000 72 36 0 56 127 28 99 1.50e-15 70.5
MS.gene62014.t1 AT3G62420 44.304 79 44 0 49 127 15 93 2.29e-15 69.3
MS.gene62014.t1 AT1G75390 40.187 107 61 1 24 127 3 109 2.38e-15 70.1
MS.gene62014.t1 AT1G75390 39.815 108 62 1 24 128 3 110 9.38e-15 67.0
MS.gene62014.t1 AT4G34590 45.946 74 40 0 54 127 22 95 1.94e-12 62.0

Find 32 sgRNAs with CRISPR-Local

Find 36 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGAGGATTTGAATAGGGTTT+TGG 0.268357 7.2:+80128183 None:intergenic
TAGAATTGGTTGGAGAGTTT+TGG 0.269358 7.2:+80128215 None:intergenic
AAACTCTCCAACCAATTCTA+TGG 0.313604 7.2:-80128212 MS.gene62014:CDS
GAAGAATCAGATTTAACATT+TGG 0.320345 7.2:+80127786 None:intergenic
AGCTTTGGTCACAGGTGGTT+TGG 0.335781 7.2:-80127998 MS.gene62014:CDS
CTTTCAATTGAACATTCTCT+TGG 0.350205 7.2:+80127907 None:intergenic
GGTCACAGGTGGTTTGGCTT+AGG 0.364737 7.2:-80127992 MS.gene62014:CDS
AAGTCTTGGAGGATTTGAAT+AGG 0.369300 7.2:+80128176 None:intergenic
GAGGTGTTTGGATGGTGTTT+TGG 0.378558 7.2:+80128243 None:intergenic
TTTGGTTGAAACCATAGAAT+TGG 0.382996 7.2:+80128201 None:intergenic
AGTCTTGGAGGATTTGAATA+GGG 0.412178 7.2:+80128177 None:intergenic
GCTTGATGAGCTTTGGTCAC+AGG 0.439356 7.2:-80128006 MS.gene62014:CDS
AGCTTCAGAACTTCGACAAA+TGG 0.463372 7.2:-80127880 MS.gene62014:CDS
TGGATGTTGAGGTGTTTGGA+TGG 0.476729 7.2:+80128235 None:intergenic
TTTGTTTCCTCATTCGCGAC+CGG 0.491382 7.2:+80128033 None:intergenic
AGGATGGAGGACTGAAGTCT+TGG 0.496834 7.2:+80128162 None:intergenic
ATGGAGGACTGAAGTCTTGG+AGG 0.500414 7.2:+80128165 None:intergenic
GCGACCGGCGTGCTGACTCT+CGG 0.500855 7.2:+80128048 None:intergenic
GTTGAAACCATAGAATTGGT+TGG 0.501172 7.2:+80128205 None:intergenic
CAGCACGCCGGTCGCGAATG+AGG 0.513300 7.2:-80128040 MS.gene62014:CDS
CGAAAGAAAACATCGAAGAA+TGG 0.528388 7.2:-80128078 MS.gene62014:CDS
ACATTTGGTGAAGTGATGCT+AGG 0.529651 7.2:+80127801 None:intergenic
TGATGAGCTTTGGTCACAGG+TGG 0.534117 7.2:-80128003 MS.gene62014:CDS
TTCTTTCGTTGATTAGACCT+AGG 0.573011 7.2:+80128093 None:intergenic
ACATCTTCAAGAGGACTCAA+AGG 0.584334 7.2:+80127825 None:intergenic
TTGCTGCTTATGCATGAGGA+TGG 0.607001 7.2:+80128146 None:intergenic
CAACTCAACTTCCGACGAAG+CGG 0.609407 7.2:-80128126 MS.gene62014:CDS
CTGCTTATGCATGAGGATGG+AGG 0.633472 7.2:+80128149 None:intergenic
ATGCTAGGAACATCTTCAAG+AGG 0.640644 7.2:+80127816 None:intergenic
TGAGTTGCTGCTTATGCATG+AGG 0.648721 7.2:+80128142 None:intergenic
GAAGCGGACGAACAAAACCT+AGG 0.674445 7.2:-80128110 MS.gene62014:CDS
CGAACCGAGAGTCAGCACGC+CGG 0.746941 7.2:-80128052 MS.gene62014:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! GAAGAATCAGATTTAACATT+TGG + chr7.2:80128244-80128263 None:intergenic 25.0%
CTTTCAATTGAACATTCTCT+TGG + chr7.2:80128123-80128142 None:intergenic 30.0%
TTTGGTTGAAACCATAGAAT+TGG + chr7.2:80127829-80127848 None:intergenic 30.0%
AAAAACAGCTTGATGAGCTT+TGG - chr7.2:80128014-80128033 MS.gene62014:CDS 35.0%
AAACTCTCCAACCAATTCTA+TGG - chr7.2:80127815-80127834 MS.gene62014:CDS 35.0%
AAGTCTTGGAGGATTTGAAT+AGG + chr7.2:80127854-80127873 None:intergenic 35.0%
AGTCTTGGAGGATTTGAATA+GGG + chr7.2:80127853-80127872 None:intergenic 35.0%
CGAAAGAAAACATCGAAGAA+TGG - chr7.2:80127949-80127968 MS.gene62014:CDS 35.0%
GTTGAAACCATAGAATTGGT+TGG + chr7.2:80127825-80127844 None:intergenic 35.0%
! TAGAATTGGTTGGAGAGTTT+TGG + chr7.2:80127815-80127834 None:intergenic 35.0%
! TTCTTTCGTTGATTAGACCT+AGG + chr7.2:80127937-80127956 None:intergenic 35.0%
ACATCTTCAAGAGGACTCAA+AGG + chr7.2:80128205-80128224 None:intergenic 40.0%
AGCTTCAGAACTTCGACAAA+TGG - chr7.2:80128147-80128166 MS.gene62014:CDS 40.0%
ATGCTAGGAACATCTTCAAG+AGG + chr7.2:80128214-80128233 None:intergenic 40.0%
! ACATTTGGTGAAGTGATGCT+AGG + chr7.2:80128229-80128248 None:intergenic 40.0%
! GGAGGATTTGAATAGGGTTT+TGG + chr7.2:80127847-80127866 None:intergenic 40.0%
!! GTTTTGGATGTTGAGGTGTT+TGG + chr7.2:80127799-80127818 None:intergenic 40.0%
!!! TTGGAGAGTTTTGGATGTTG+AGG + chr7.2:80127806-80127825 None:intergenic 40.0%
TTTGTTTCCTCATTCGCGAC+CGG + chr7.2:80127997-80128016 None:intergenic 45.0%
! TGAGTTGCTGCTTATGCATG+AGG + chr7.2:80127888-80127907 None:intergenic 45.0%
! TGGATGTTGAGGTGTTTGGA+TGG + chr7.2:80127795-80127814 None:intergenic 45.0%
! TTGCTGCTTATGCATGAGGA+TGG + chr7.2:80127884-80127903 None:intergenic 45.0%
!! GAGGTGTTTGGATGGTGTTT+TGG + chr7.2:80127787-80127806 None:intergenic 45.0%
AGGATGGAGGACTGAAGTCT+TGG + chr7.2:80127868-80127887 None:intergenic 50.0%
ATGGAGGACTGAAGTCTTGG+AGG + chr7.2:80127865-80127884 None:intergenic 50.0%
CAACTCAACTTCCGACGAAG+CGG - chr7.2:80127901-80127920 MS.gene62014:CDS 50.0%
CTGCTTATGCATGAGGATGG+AGG + chr7.2:80127881-80127900 None:intergenic 50.0%
GAAGCGGACGAACAAAACCT+AGG - chr7.2:80127917-80127936 MS.gene62014:CDS 50.0%
! AGCTTTGGTCACAGGTGGTT+TGG - chr7.2:80128029-80128048 MS.gene62014:CDS 50.0%
! GCTTGATGAGCTTTGGTCAC+AGG - chr7.2:80128021-80128040 MS.gene62014:CDS 50.0%
! TGATGAGCTTTGGTCACAGG+TGG - chr7.2:80128024-80128043 MS.gene62014:CDS 50.0%
!! GTTTTGTTCGTCCGCTTCGT+CGG + chr7.2:80127915-80127934 None:intergenic 50.0%
! GGTCACAGGTGGTTTGGCTT+AGG - chr7.2:80128035-80128054 MS.gene62014:CDS 55.0%
CGAACCGAGAGTCAGCACGC+CGG - chr7.2:80127975-80127994 MS.gene62014:CDS 65.0%
CAGCACGCCGGTCGCGAATG+AGG - chr7.2:80127987-80128006 MS.gene62014:CDS 70.0%
!! GCGACCGGCGTGCTGACTCT+CGG + chr7.2:80127982-80128001 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 80127779 80128270 80127779 ID=MS.gene62014
chr7.2 mRNA 80127779 80128270 80127779 ID=MS.gene62014.t1;Parent=MS.gene62014
chr7.2 exon 80127779 80128270 80127779 ID=MS.gene62014.t1.exon1;Parent=MS.gene62014.t1
chr7.2 CDS 80127779 80128270 80127779 ID=cds.MS.gene62014.t1;Parent=MS.gene62014.t1
Gene Sequence

>MS.gene62014

ATGATCCAAAACACCATCCAAACACCTCAACATCCAAAACTCTCCAACCAATTCTATGGTTTCAACCAAAACCCTATTCAAATCCTCCAAGACTTCAGTCCTCCATCCTCATGCATAAGCAGCAACTCAACTTCCGACGAAGCGGACGAACAAAACCTAGGTCTAATCAACGAAAGAAAACATCGAAGAATGGTATCGAACCGAGAGTCAGCACGCCGGTCGCGAATGAGGAAACAAAAACAGCTTGATGAGCTTTGGTCACAGGTGGTTTGGCTTAGGAATGAAAATCATCAATTACTAGATAAGCTCAATAATTTCTGTGAGACTCATGATAAAGTTGTCCAAGAGAATGTTCAATTGAAAGAACAAGCTTCAGAACTTCGACAAATGGTGTGTGATATGCAGTTACATAGTACTTGTCTTCCTTTGAGTCCTCTTGAAGATGTTCCTAGCATCACTTCACCAAATGTTAAATCTGATTCTTCAAACTAA
Protein sequence

>MS.gene62014.t1

MIQNTIQTPQHPKLSNQFYGFNQNPIQILQDFSPPSSCISSNSTSDEADEQNLGLINERKHRRMVSNRESARRSRMRKQKQLDELWSQVVWLRNENHQLLDKLNNFCETHDKVVQENVQLKEQASELRQMVCDMQLHSTCLPLSPLEDVPSITSPNVKSDSSN