AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene065728


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene065728.t1 MTR_1g058560 98.462 195 3 0 1 195 1 195 6.17e-138 383
MS.gene065728.t1 MTR_1g058540 81.633 196 35 1 1 195 1 196 6.87e-100 287
MS.gene065728.t1 MTR_1g058570 88.205 195 22 1 1 195 1 194 1.32e-99 286
MS.gene065728.t1 MTR_2g086740 60.694 173 68 0 22 194 47 219 7.52e-59 184
MS.gene065728.t1 MTR_7g011090 52.941 170 80 0 26 195 17 186 4.19e-56 176
MS.gene065728.t1 MTR_4g081880 42.932 191 103 2 4 194 2 186 6.88e-51 162
MS.gene065728.t1 MTR_5g041900 48.503 167 86 0 29 195 20 186 5.07e-45 147
MS.gene065728.t1 MTR_2g086740 63.462 104 38 0 22 125 47 150 2.23e-34 119
MS.gene065728.t1 MTR_0004s0210 37.419 155 84 4 36 188 7 150 5.21e-21 85.5
MS.gene065728.t1 MTR_0097s0070 33.898 118 76 2 72 188 69 185 6.44e-14 67.4
MS.gene065728.t1 MTR_4g118800 30.833 120 82 1 74 192 62 181 1.86e-12 63.2
MS.gene065728.t1 MTR_8g089300 29.487 156 101 3 41 188 30 184 1.90e-12 63.5
MS.gene065728.t1 MTR_7g108130 27.742 155 109 2 36 188 28 181 2.47e-12 63.2
MS.gene065728.t1 MTR_3g064310 32.203 118 77 2 75 192 77 191 3.08e-12 63.2
MS.gene065728.t1 MTR_5g076480 34.483 116 72 3 75 189 69 181 4.25e-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.gene065728.t1 AT2G36100 56.863 204 76 3 2 195 5 206 1.27e-70 213
MS.gene065728.t1 AT3G11550 62.189 201 68 3 2 195 5 204 3.20e-64 197
MS.gene065728.t1 AT5G06200 61.616 198 70 3 2 194 5 201 1.02e-63 196
MS.gene065728.t1 AT2G27370 51.724 203 83 2 7 194 17 219 1.99e-62 193
MS.gene065728.t1 AT5G15290 44.828 174 86 1 2 175 3 166 1.91e-49 159
MS.gene065728.t1 AT1G14160 41.212 165 97 0 31 195 45 209 3.99e-44 146
MS.gene065728.t1 AT1G03700 32.886 149 91 2 40 188 12 151 2.50e-19 81.3
MS.gene065728.t1 AT1G17200 27.660 188 124 4 9 192 2 181 2.00e-16 74.3
MS.gene065728.t1 AT4G03540 33.058 121 72 2 56 176 28 139 2.31e-15 70.9
MS.gene065728.t1 AT5G44550 33.951 162 95 4 41 194 22 179 2.68e-15 71.2
MS.gene065728.t1 AT3G06390 30.075 133 88 2 37 164 37 169 2.78e-13 65.9
MS.gene065728.t1 AT4G15630 26.601 203 118 6 2 192 6 189 7.74e-12 61.6
MS.gene065728.t1 AT4G15610 26.144 153 107 3 28 175 20 171 8.02e-12 61.6

Find 40 sgRNAs with CRISPR-Local

Find 67 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCCATCCTCCTGGCCTTGC+AGG 0.176057 1.2:+45985646 None:intergenic
TGATTCTTGGATATCAATTT+TGG 0.215560 1.2:+45985708 None:intergenic
CTAGCCATTTGCAACCAATT+TGG 0.242258 1.2:-45984827 MS.gene065728:CDS
GTGATGTCTGCTTTGGCTAT+TGG 0.247792 1.2:-45984731 MS.gene065728:CDS
TGGTATCTTTGCTTGATTCT+TGG 0.263645 1.2:+45985695 None:intergenic
GGCAATAGTGGCTGGCTATT+TGG 0.274909 1.2:-45985292 MS.gene065728:CDS
TGATGTCTGCTTTGGCTATT+GGG 0.288501 1.2:-45984730 MS.gene065728:CDS
CCTTAAAATGAAATCCATTA+TGG 0.301071 1.2:+45985612 None:intergenic
TACCAAAGGAAAAGCTGTTT+TGG 0.315492 1.2:-45985677 MS.gene065728:CDS
ATGATGGCTACTATAGAAAA+AGG 0.341980 1.2:+45985258 None:intergenic
AAGGCCAGGAGGATGGAAAA+AGG 0.353235 1.2:-45985641 MS.gene065728:CDS
TCTTATTGCAATGGCAATAG+TGG 0.367241 1.2:-45985304 MS.gene065728:CDS
TCTTGCCGCTGCCGCCTCGA+TGG 0.384071 1.2:-45985569 MS.gene065728:CDS
AGCTGCTTCCATAGTTTACT+TGG 0.385601 1.2:-45984879 MS.gene065728:CDS
CTTGCCGCTGCCGCCTCGAT+GGG 0.402133 1.2:-45985568 MS.gene065728:CDS
GTTGGTTGTGATGTCTGCTT+TGG 0.406589 1.2:-45984738 MS.gene065728:CDS
GTGCACAGAAATCTCCAAAT+TGG 0.409853 1.2:+45984813 None:intergenic
ATGGAAATCAAGACACAAAC+TGG 0.414877 1.2:-45984850 MS.gene065728:CDS
AGCGGCAAGAGCTGCTGCTA+TGG 0.432197 1.2:+45985582 None:intergenic
ATCTCCAAATTGGTTGCAAA+TGG 0.445100 1.2:+45984823 None:intergenic
GTTGCAGCACCTGCAAGGCC+AGG 0.457764 1.2:-45985655 MS.gene065728:CDS
CACCTGCAAGGCCAGGAGGA+TGG 0.475215 1.2:-45985648 MS.gene065728:CDS
ATTGTGTGCCAAGTAAACTA+TGG 0.493367 1.2:+45984871 None:intergenic
AATGTTACATACTGGAATGC+AGG 0.494232 1.2:+45985478 None:intergenic
AAGCCTTGGTCCAGTTGCAT+GGG 0.497314 1.2:+45985230 None:intergenic
TGTTCCCATCGAGGCGGCAG+CGG 0.517932 1.2:+45985564 None:intergenic
AAAGCCTTGGTCCAGTTGCA+TGG 0.518863 1.2:+45985229 None:intergenic
ATTGCAGGTATTTCTTACAC+TGG 0.547240 1.2:-45984921 MS.gene065728:intron
ATTGCAATGGCAATAGTGGC+TGG 0.552076 1.2:-45985300 MS.gene065728:CDS
ATTGAGATCTTACAGTGTCT+AGG 0.588191 1.2:+45985196 None:intergenic
TGTGGCATCATTTATTACTG+TGG 0.599611 1.2:-45984774 MS.gene065728:CDS
ACAGACAAGTGGTGCAGTTG+TGG 0.601968 1.2:-45984792 MS.gene065728:CDS
AGCCTTGGTCCAGTTGCATG+GGG 0.616293 1.2:+45985231 None:intergenic
ATAGTTTACTTGGCACACAA+TGG 0.619739 1.2:-45984869 MS.gene065728:CDS
GCAGCACCTGCAAGGCCAGG+AGG 0.636977 1.2:-45985652 MS.gene065728:CDS
GAATCAAGCAAAGATACCAA+AGG 0.648211 1.2:-45985691 MS.gene065728:CDS
ATCACTTGTTCCCATCGAGG+CGG 0.653937 1.2:+45985558 None:intergenic
TTGATCACTTGTTCCCATCG+AGG 0.661241 1.2:+45985555 None:intergenic
GATTTCTGTGCACAGACAAG+TGG 0.683686 1.2:-45984803 MS.gene065728:CDS
GCCTTGGTCCAGTTGCATGG+GGG 0.707472 1.2:+45985232 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! GATGTATTTAATTCAACTTT+TGG + chr1.2:45985371-45985390 None:intergenic 20.0%
!!! TTAGTTATGATTTTTCTTTG+TGG - chr1.2:45985484-45985503 MS.gene065728:intron 20.0%
! CCTTAAAATGAAATCCATTA+TGG + chr1.2:45984827-45984846 None:intergenic 25.0%
! TTCTAAGTCACATATAAGAT+CGG - chr1.2:45985003-45985022 MS.gene065728:intron 25.0%
!! CTTATACTTATATTTGAGAC+TGG + chr1.2:45985319-45985338 None:intergenic 25.0%
!! TGATTCTTGGATATCAATTT+TGG + chr1.2:45984731-45984750 None:intergenic 25.0%
!!! ATGGATTTCATTTTAAGGTT+AGG - chr1.2:45984829-45984848 MS.gene065728:CDS 25.0%
!!! CCATAATGGATTTCATTTTA+AGG - chr1.2:45984824-45984843 MS.gene065728:CDS 25.0%
!!! TCAACAAAAGTTGATGTATT+TGG - chr1.2:45985344-45985363 MS.gene065728:intron 25.0%
ACTCTTCTTGATCATTTCTT+TGG - chr1.2:45985270-45985289 MS.gene065728:CDS 30.0%
ACTTAATGCTTGAAAAATGC+AGG - chr1.2:45985104-45985123 MS.gene065728:intron 30.0%
ATGATGGCTACTATAGAAAA+AGG + chr1.2:45985181-45985200 None:intergenic 30.0%
TAGATGTTTACTACTCTCTT+CGG + chr1.2:45985430-45985449 None:intergenic 30.0%
! ATACTTATATTTGAGACTGG+AGG + chr1.2:45985316-45985335 None:intergenic 30.0%
! TACTTATATTTGAGACTGGA+GGG + chr1.2:45985315-45985334 None:intergenic 30.0%
!!! CAGGTTTTTTCTTATTGCAA+TGG - chr1.2:45985123-45985142 MS.gene065728:intron 30.0%
!!! GAGTTTTGAATGTTACATAC+TGG + chr1.2:45984969-45984988 None:intergenic 30.0%
!!! TGTGGTTGTTTTAATCTTGT+TGG - chr1.2:45985680-45985699 MS.gene065728:CDS 30.0%
AATGTTACATACTGGAATGC+AGG + chr1.2:45984961-45984980 None:intergenic 35.0%
ATAGTTTACTTGGCACACAA+TGG - chr1.2:45985567-45985586 MS.gene065728:CDS 35.0%
ATCTCCAAATTGGTTGCAAA+TGG + chr1.2:45985616-45985635 None:intergenic 35.0%
ATGGAAATCAAGACACAAAC+TGG - chr1.2:45985586-45985605 MS.gene065728:CDS 35.0%
ATTGAGATCTTACAGTGTCT+AGG + chr1.2:45985243-45985262 None:intergenic 35.0%
ATTGCAGGTATTTCTTACAC+TGG - chr1.2:45985515-45985534 MS.gene065728:CDS 35.0%
ATTGTGTGCCAAGTAAACTA+TGG + chr1.2:45985568-45985587 None:intergenic 35.0%
GAATCAAGCAAAGATACCAA+AGG - chr1.2:45984745-45984764 MS.gene065728:CDS 35.0%
TCTTATTGCAATGGCAATAG+TGG - chr1.2:45985132-45985151 MS.gene065728:intron 35.0%
TGGTATCTTTGCTTGATTCT+TGG + chr1.2:45984744-45984763 None:intergenic 35.0%
TGTGGCATCATTTATTACTG+TGG - chr1.2:45985662-45985681 MS.gene065728:CDS 35.0%
TTTGTGGTGCTTATAATTGC+AGG - chr1.2:45985500-45985519 MS.gene065728:CDS 35.0%
! AACCAAAACAGCTTTTCCTT+TGG + chr1.2:45984764-45984783 None:intergenic 35.0%
! ACTTATATTTGAGACTGGAG+GGG + chr1.2:45985314-45985333 None:intergenic 35.0%
! TACCAAAGGAAAAGCTGTTT+TGG - chr1.2:45984759-45984778 MS.gene065728:CDS 35.0%
AGCTGCTTCCATAGTTTACT+TGG - chr1.2:45985557-45985576 MS.gene065728:CDS 40.0%
AGGATGATGAGAAAAAGCCT+TGG + chr1.2:45985223-45985242 None:intergenic 40.0%
CTAGCCATTTGCAACCAATT+TGG - chr1.2:45985609-45985628 MS.gene065728:CDS 40.0%
GTGCACAGAAATCTCCAAAT+TGG + chr1.2:45985626-45985645 None:intergenic 40.0%
TGATGTCTGCTTTGGCTATT+GGG - chr1.2:45985706-45985725 MS.gene065728:CDS 40.0%
! CTTATATTTGAGACTGGAGG+GGG + chr1.2:45985313-45985332 None:intergenic 40.0%
! GAAAAAGGGCATAGCCATAA+TGG - chr1.2:45984810-45984829 MS.gene065728:CDS 40.0%
ATTGCAATGGCAATAGTGGC+TGG - chr1.2:45985136-45985155 MS.gene065728:intron 45.0%
GATTTCTGTGCACAGACAAG+TGG - chr1.2:45985633-45985652 MS.gene065728:CDS 45.0%
GTGATGTCTGCTTTGGCTAT+TGG - chr1.2:45985705-45985724 MS.gene065728:CDS 45.0%
GTTGGTTGTGATGTCTGCTT+TGG - chr1.2:45985698-45985717 MS.gene065728:CDS 45.0%
TTGATCACTTGTTCCCATCG+AGG + chr1.2:45984884-45984903 None:intergenic 45.0%
AAAGCCTTGGTCCAGTTGCA+TGG + chr1.2:45985210-45985229 None:intergenic 50.0%
AAGCCTTGGTCCAGTTGCAT+GGG + chr1.2:45985209-45985228 None:intergenic 50.0%
AAGGCCAGGAGGATGGAAAA+AGG - chr1.2:45984795-45984814 MS.gene065728:CDS 50.0%
ACAGACAAGTGGTGCAGTTG+TGG - chr1.2:45985644-45985663 MS.gene065728:CDS 50.0%
AGGCCAGGAGGATGGAAAAA+GGG - chr1.2:45984796-45984815 MS.gene065728:CDS 50.0%
ATCACTTGTTCCCATCGAGG+CGG + chr1.2:45984881-45984900 None:intergenic 50.0%
! ATGCCCTTTTTCCATCCTCC+TGG + chr1.2:45984802-45984821 None:intergenic 50.0%
! GGCAATAGTGGCTGGCTATT+TGG - chr1.2:45985144-45985163 MS.gene065728:intron 50.0%
!! TTTTGGTTGCAGCACCTGCA+AGG - chr1.2:45984776-45984795 MS.gene065728:CDS 50.0%
AGCCTTGGTCCAGTTGCATG+GGG + chr1.2:45985208-45985227 None:intergenic 55.0%
ATCATACGCCCCCATGCAAC+TGG - chr1.2:45985196-45985215 MS.gene065728:intron 55.0%
! AGTTGCATGGGGGCGTATGA+TGG + chr1.2:45985197-45985216 None:intergenic 55.0%
AGCGGCAAGAGCTGCTGCTA+TGG + chr1.2:45984857-45984876 None:intergenic 60.0%
GCCTTGGTCCAGTTGCATGG+GGG + chr1.2:45985207-45985226 None:intergenic 60.0%
!! TTCCATCCTCCTGGCCTTGC+AGG + chr1.2:45984793-45984812 None:intergenic 60.0%
CACCTGCAAGGCCAGGAGGA+TGG - chr1.2:45984788-45984807 MS.gene065728:CDS 65.0%
GCCCCCATGCAACTGGACCA+AGG - chr1.2:45985203-45985222 MS.gene065728:intron 65.0%
GTTGCAGCACCTGCAAGGCC+AGG - chr1.2:45984781-45984800 MS.gene065728:CDS 65.0%
TGTTCCCATCGAGGCGGCAG+CGG + chr1.2:45984875-45984894 None:intergenic 65.0%
CTTGCCGCTGCCGCCTCGAT+GGG - chr1.2:45984868-45984887 MS.gene065728:CDS 70.0%
GCAGCACCTGCAAGGCCAGG+AGG - chr1.2:45984784-45984803 MS.gene065728:CDS 70.0%
TCTTGCCGCTGCCGCCTCGA+TGG - chr1.2:45984867-45984886 MS.gene065728:CDS 70.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 45984721 45985737 45984721 ID=MS.gene065728
chr1.2 mRNA 45984721 45985737 45984721 ID=MS.gene065728.t1;Parent=MS.gene065728
chr1.2 exon 45985490 45985737 45985490 ID=MS.gene065728.t1.exon1;Parent=MS.gene065728.t1
chr1.2 CDS 45985490 45985737 45985490 ID=cds.MS.gene065728.t1;Parent=MS.gene065728.t1
chr1.2 exon 45985209 45985332 45985209 ID=MS.gene065728.t1.exon2;Parent=MS.gene065728.t1
chr1.2 CDS 45985209 45985332 45985209 ID=cds.MS.gene065728.t1;Parent=MS.gene065728.t1
chr1.2 exon 45984721 45984936 45984721 ID=MS.gene065728.t1.exon3;Parent=MS.gene065728.t1
chr1.2 CDS 45984721 45984936 45984721 ID=cds.MS.gene065728.t1;Parent=MS.gene065728.t1
Gene Sequence

>MS.gene065728

ATGTCAACCAAAATTGATATCCAAGAATCAAGCAAAGATACCAAAGGAAAAGCTGTTTTGGTTGCAGCACCTGCAAGGCCAGGAGGATGGAAAAAGGGCATAGCCATAATGGATTTCATTTTAAGGTTAGGTGCCATAGCAGCAGCTCTTGCCGCTGCCGCCTCGATGGGAACAAGTGATCAATCTCTTTCTTTCTTTACTCAGTTCTTTCAGTTTGAAGCTAGCTATGATAGCTTTCCTGCATTCCAGTATGTAACATTCAAAACTCTACTTTCTATGTCTTTCTAAGTCACATATAAGATCGGTTATGATCTGATGATAGTGTAAAACGTTTTACACTAATATGTATCAAAATTAGATTGTAATCTATATGCAATTTATTCACTTAATGCTTGAAAAATGCAGGTTTTTTCTTATTGCAATGGCAATAGTGGCTGGCTATTTGGTCTTGTCTCTACCTTTTTCTATAGTAGCCATCATACGCCCCCATGCAACTGGACCAAGGCTTTTTCTCATCATCCTAGACACTGTAAGATCTCAATTATGCTAACTCTTCTTGATCATTTCTTTGGTATAATAATGCGACATACCCCCTCCAGTCTCAAATATAAGTATAAGTTAGATCAACAAAAGTTGATGTATTTGGTCCAAAAGTTGAATTAAATACATCTATTTTTGCTGACTCAACTTTTATTTATATTTGAGACCGAAGAGAGTAGTAAACATCTAATTAGTGCTCATCTGCACGCTAGTATTAGCATAATTAGTTATGATTTTTCTTTGTGGTGCTTATAATTGCAGGTATTTCTTACACTGGCTACTGCTAGTGCTGCTTCAGCTGCTTCCATAGTTTACTTGGCACACAATGGAAATCAAGACACAAACTGGCTAGCCATTTGCAACCAATTTGGAGATTTCTGTGCACAGACAAGTGGTGCAGTTGTGGCATCATTTATTACTGTGGTTGTTTTAATCTTGTTGGTTGTGATGTCTGCTTTGGCTATTGGGAAGCATTGA

Protein sequence

>MS.gene065728.t1

MSTKIDIQESSKDTKGKAVLVAAPARPGGWKKGIAIMDFILRLGAIAAALAAAASMGTSDQSLSFFTQFFQFEASYDSFPAFQFFLIAMAIVAGYLVLSLPFSIVAIIRPHATGPRLFLIILDTVFLTLATASAASAASIVYLAHNGNQDTNWLAICNQFGDFCAQTSGAVVASFITVVVLILLVVMSALAIGKH