AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene035194


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene035194.t1 MTR_7g098290 98.571 140 2 0 1 140 1 140 3.93e-98 278
MS.gene035194.t1 MTR_1g069585 98.571 140 2 0 1 140 1 140 3.93e-98 278
MS.gene035194.t1 MTR_7g098290 98.400 125 2 0 16 140 1 125 8.58e-87 249
MS.gene035194.t1 MTR_1g026090 81.481 135 10 1 2 136 42 161 3.07e-71 212
MS.gene035194.t1 MTR_5g054560 68.800 125 15 1 16 140 1 101 1.78e-53 164
MS.gene035194.t1 MTR_5g464620 89.796 49 5 0 14 62 16 64 3.73e-25 91.7
MS.gene035194.t1 MTR_2g070580 92.683 41 3 0 100 140 87 127 2.62e-21 83.2
MS.gene035194.t1 MTR_1779s0020 36.522 115 65 3 26 136 8 118 3.65e-16 70.1
MS.gene035194.t1 MTR_4g051390 36.522 115 65 3 26 136 8 118 4.98e-16 69.7
MS.gene035194.t1 MTR_2g087550 36.792 106 60 2 26 128 8 109 1.55e-14 67.8
MS.gene035194.t1 MTR_0002s0780 34.426 122 73 3 23 140 132 250 1.92e-14 68.2
MS.gene035194.t1 MTR_4g017930 80.556 36 5 1 104 139 13 46 1.09e-11 58.5
MS.gene035194.t1 MTR_4g066540 72.500 40 7 1 100 139 54 89 7.28e-11 55.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene035194.t1 AT3G04400 98.571 140 2 0 1 140 1 140 1.65e-98 279
MS.gene035194.t1 AT2G33370 98.571 140 2 0 1 140 1 140 1.65e-98 279
MS.gene035194.t1 AT1G04480 98.571 140 2 0 1 140 1 140 1.65e-98 279
MS.gene035194.t1 AT3G04400 100.000 125 0 0 16 140 1 125 4.64e-88 252
MS.gene035194.t1 AT2G33370 100.000 125 0 0 16 140 1 125 4.64e-88 252
MS.gene035194.t1 ATCG00780 34.783 115 67 3 26 136 8 118 4.97e-15 67.0

Find 51 sgRNAs with CRISPR-Local

Find 74 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTACCTTTCATTTCTCCTT+TGG 0.232028 7.2:-12913467 None:intergenic
TTACCTTTCATTTCTCCTTT+GGG 0.290146 7.2:-12913466 None:intergenic
ATTCTTAGCTCCGGTGTTAT+CGG 0.357276 7.2:-12913117 None:intergenic
ACATGAAAACACCGTCCTTT+CGG 0.371684 7.2:-12913298 None:intergenic
GATCCGCGGGTAACAAGTTC+AGG 0.386005 7.2:+12913054 MS.gene035194:CDS
GGAAGGAGTGTGCTGATCTA+TGG 0.394494 7.2:+12913893 MS.gene035194:CDS
CCTTCCTTTGATACCTTTGA+CGG 0.396996 7.2:-12913153 None:intergenic
AGCACCTTCTTACGGAGATC+AGG 0.422915 7.2:-12913239 None:intergenic
TTCTGCTTGCGTTGGTGACA+TGG 0.443666 7.2:+12913190 MS.gene035194:CDS
CAATTCACCGTCGCCGCCAC+TGG 0.459295 7.2:-12913092 None:intergenic
TTAGCAGCACTTGCAATCCT+AGG 0.471348 7.2:-12913916 None:intergenic
CTCTACATCATTTCCGTCAA+AGG 0.478393 7.2:+12913140 MS.gene035194:CDS
GGTGATGGCCACCGTGAAGA+AGG 0.480460 7.2:+12913211 MS.gene035194:CDS
CGTTTGCCTTCTGCTTGCGT+TGG 0.482632 7.2:+12913182 MS.gene035194:CDS
TCTGCTATCACTGGTCCAAT+CGG 0.485775 7.2:+12913871 MS.gene035194:CDS
TAACAAGTTCAGGATGTCAC+TGG 0.500497 7.2:+12913064 MS.gene035194:CDS
CGGCAGGAAGCACCTTCTTA+CGG 0.502055 7.2:-12913247 None:intergenic
ATCAGGCTTACCCTTCTTCA+CGG 0.504036 7.2:-12913222 None:intergenic
CTCAGGTCGCGGAGGATCCG+CGG 0.504873 7.2:+12913040 MS.gene035194:intron
CTGCTATCACTGGTCCAATC+GGG 0.511052 7.2:+12913872 MS.gene035194:CDS
TTGTATTGTGCAGACAATGC+TGG 0.531818 7.2:+12913430 MS.gene035194:intron
ATTGTAGGGTCTGCTATCAC+TGG 0.534637 7.2:+12913862 MS.gene035194:intron
CAACGCAAGCAGAAGGCAAA+CGG 0.538758 7.2:-12913181 None:intergenic
TCAGCACACTCCTTCCCGAT+TGG 0.539409 7.2:-12913886 None:intergenic
CGCTGGCGAACGATGACGGC+AGG 0.540043 7.2:-12913263 None:intergenic
ACACCGTCCTTTCGGCGCCA+TGG 0.550488 7.2:-12913290 None:intergenic
CCGTCAAAGGTATCAAAGGA+AGG 0.551618 7.2:+12913153 MS.gene035194:CDS
TCAGGTCGCGGAGGATCCGC+GGG 0.560803 7.2:+12913041 MS.gene035194:intron
AGTGTGCTGATCTATGGCCT+AGG 0.561029 7.2:+12913899 MS.gene035194:CDS
TTCGGCGCCATGGTTTACGC+TGG 0.563205 7.2:-12913280 None:intergenic
GGTGTTATTGTTAATCCCAA+AGG 0.565013 7.2:+12913451 MS.gene035194:CDS
TAAGCCTGATCTCCGTAAGA+AGG 0.569085 7.2:+12913235 MS.gene035194:CDS
ATTTCCGTCAAAGGTATCAA+AGG 0.575410 7.2:+12913149 MS.gene035194:CDS
GGGTCTACCAGTGGCGGCGA+CGG 0.576990 7.2:+12913085 MS.gene035194:CDS
GTGATGGCCACCGTGAAGAA+GGG 0.579374 7.2:+12913212 MS.gene035194:CDS
TTGCGTTGGTGACATGGTGA+TGG 0.588839 7.2:+12913196 MS.gene035194:CDS
GATGTAGAGATTCTTAGCTC+CGG 0.596136 7.2:-12913126 None:intergenic
TTTACGCTGGCGAACGATGA+CGG 0.598744 7.2:-12913267 None:intergenic
AAACCATGGCGCCGAAAGGA+CGG 0.604162 7.2:+12913287 MS.gene035194:CDS
GCGTAAACCATGGCGCCGAA+AGG 0.604166 7.2:+12913283 MS.gene035194:CDS
AACAAGTTCAGGATGTCACT+GGG 0.607031 7.2:+12913065 MS.gene035194:CDS
ATGTCACCAACGCAAGCAGA+AGG 0.609870 7.2:-12913188 None:intergenic
GTCACTGGGTCTACCAGTGG+CGG 0.621290 7.2:+12913079 MS.gene035194:CDS
GTGAATTGCGCCGATAACAC+CGG 0.624326 7.2:+12913107 MS.gene035194:CDS
AATCCCAAAGGAGAAATGAA+AGG 0.624552 7.2:+12913463 MS.gene035194:CDS
GCAGCAGCAATGTCGAAGAG+AGG 0.645193 7.2:+12912927 None:intergenic
TCGTTCGCCAGCGTAAACCA+TGG 0.647146 7.2:+12913273 MS.gene035194:CDS
GATGTCACTGGGTCTACCAG+TGG 0.653286 7.2:+12913076 MS.gene035194:CDS
TATCACTGGTCCAATCGGGA+AGG 0.675150 7.2:+12913876 MS.gene035194:CDS
CATCCTGAACTTGTTACCCG+CGG 0.683379 7.2:-12913057 None:intergenic
AGGCTTACCCTTCTTCACGG+TGG 0.718796 7.2:-12913219 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTAATAATCAGTATTAAAAT+TGG + chr7.2:12913740-12913759 MS.gene035194:intron 10.0%
!! TAATCAGTATTAAAATTGGT+TGG + chr7.2:12913744-12913763 MS.gene035194:intron 20.0%
!! TGATTCTTACTTAATATTTC+TGG + chr7.2:12913406-12913425 MS.gene035194:intron 20.0%
! TGGGTAATATATGTAATGAT+TGG + chr7.2:12913558-12913577 MS.gene035194:intron 25.0%
!! AATGATTGGTGTTTAATAAG+TGG + chr7.2:12913572-12913591 MS.gene035194:intron 25.0%
!! ATTTTCATCTTCAGATTCTT+AGG + chr7.2:12912959-12912978 MS.gene035194:intron 25.0%
ATTAAAATTGGTTGGAGGAT+CGG + chr7.2:12913752-12913771 MS.gene035194:intron 30.0%
CACAACATCAAAACCAAAAA+CGG - chr7.2:12913804-12913823 None:intergenic 30.0%
TCAGTATTAAAATTGGTTGG+AGG + chr7.2:12913747-12913766 MS.gene035194:intron 30.0%
TTACCTTTCATTTCTCCTTT+GGG - chr7.2:12913469-12913488 None:intergenic 30.0%
TTTACCTTTCATTTCTCCTT+TGG - chr7.2:12913470-12913489 None:intergenic 30.0%
! TTATTAAAACGCGCTTTTGT+AGG - chr7.2:12913002-12913021 None:intergenic 30.0%
!! CGATTTTCATTTTGTTTCTC+AGG + chr7.2:12913023-12913042 MS.gene035194:intron 30.0%
!! TATGTTTTTATCGCCGTTTT+TGG + chr7.2:12913788-12913807 MS.gene035194:intron 30.0%
!! TCGTGTTGATTGTAATTGTA+GGG + chr7.2:12913848-12913867 MS.gene035194:intron 30.0%
!! TTCGTGTTGATTGTAATTGT+AGG + chr7.2:12913847-12913866 MS.gene035194:intron 30.0%
AATCCCAAAGGAGAAATGAA+AGG + chr7.2:12913463-12913482 MS.gene035194:CDS 35.0%
ACTGCTGTGTCTTCAATAAT+TGG + chr7.2:12913654-12913673 MS.gene035194:intron 35.0%
ATGATAATATCGACGTAGGT+GGG + chr7.2:12913539-12913558 MS.gene035194:intron 35.0%
TTAAAATTGGTTGGAGGATC+GGG + chr7.2:12913753-12913772 MS.gene035194:intron 35.0%
!! ATTTCCGTCAAAGGTATCAA+AGG + chr7.2:12913149-12913168 MS.gene035194:CDS 35.0%
!! GGTGTTATTGTTAATCCCAA+AGG + chr7.2:12913451-12913470 MS.gene035194:CDS 35.0%
!! GGTTTTGATGTTGTGCTTTT+TGG + chr7.2:12913809-12913828 MS.gene035194:intron 35.0%
AACAAGTTCAGGATGTCACT+GGG + chr7.2:12913065-12913084 MS.gene035194:CDS 40.0%
ACATGAAAACACCGTCCTTT+CGG - chr7.2:12913301-12913320 None:intergenic 40.0%
CACGATGATAATATCGACGT+AGG + chr7.2:12913535-12913554 MS.gene035194:intron 40.0%
CCTTCCTTTGATACCTTTGA+CGG - chr7.2:12913156-12913175 None:intergenic 40.0%
CTACGTCGATATTATCATCG+TGG - chr7.2:12913537-12913556 None:intergenic 40.0%
CTCTACATCATTTCCGTCAA+AGG + chr7.2:12913140-12913159 MS.gene035194:CDS 40.0%
GATGATAATATCGACGTAGG+TGG + chr7.2:12913538-12913557 MS.gene035194:intron 40.0%
GATGTAGAGATTCTTAGCTC+CGG - chr7.2:12913129-12913148 None:intergenic 40.0%
TAACAAGTTCAGGATGTCAC+TGG + chr7.2:12913064-12913083 MS.gene035194:CDS 40.0%
TTGTATTGTGCAGACAATGC+TGG + chr7.2:12913430-12913449 MS.gene035194:intron 40.0%
! GGTGTTTTCATGTACTTCGA+AGG + chr7.2:12913308-12913327 MS.gene035194:CDS 40.0%
!! ATTCTTAGCTCCGGTGTTAT+CGG - chr7.2:12913120-12913139 None:intergenic 40.0%
!! TCATTTTGTTTCTCAGGTCG+CGG + chr7.2:12913029-12913048 MS.gene035194:intron 40.0%
ATCAGGCTTACCCTTCTTCA+CGG - chr7.2:12913225-12913244 None:intergenic 45.0%
ATTGTAGGGTCTGCTATCAC+TGG + chr7.2:12913862-12913881 MS.gene035194:intron 45.0%
TAAGCCTGATCTCCGTAAGA+AGG + chr7.2:12913235-12913254 MS.gene035194:CDS 45.0%
TCTGCTATCACTGGTCCAAT+CGG + chr7.2:12913871-12913890 MS.gene035194:CDS 45.0%
TTAGCAGCACTTGCAATCCT+AGG - chr7.2:12913919-12913938 None:intergenic 45.0%
!! CCGTCAAAGGTATCAAAGGA+AGG + chr7.2:12913153-12913172 MS.gene035194:CDS 45.0%
AGCACCTTCTTACGGAGATC+AGG - chr7.2:12913242-12913261 None:intergenic 50.0%
ATGTCACCAACGCAAGCAGA+AGG - chr7.2:12913191-12913210 None:intergenic 50.0%
CAACGCAAGCAGAAGGCAAA+CGG - chr7.2:12913184-12913203 None:intergenic 50.0%
CTGCTATCACTGGTCCAATC+GGG + chr7.2:12913872-12913891 MS.gene035194:CDS 50.0%
TATCACTGGTCCAATCGGGA+AGG + chr7.2:12913876-12913895 MS.gene035194:CDS 50.0%
TTTACGCTGGCGAACGATGA+CGG - chr7.2:12913270-12913289 None:intergenic 50.0%
! AGTGTGCTGATCTATGGCCT+AGG + chr7.2:12913899-12913918 MS.gene035194:CDS 50.0%
! GGAAGGAGTGTGCTGATCTA+TGG + chr7.2:12913893-12913912 MS.gene035194:CDS 50.0%
! GTGAATTGCGCCGATAACAC+CGG + chr7.2:12913107-12913126 MS.gene035194:CDS 50.0%
!! CATCCTGAACTTGTTACCCG+CGG - chr7.2:12913060-12913079 None:intergenic 50.0%
!! TTCTGCTTGCGTTGGTGACA+TGG + chr7.2:12913190-12913209 MS.gene035194:CDS 50.0%
!! TTGCGTTGGTGACATGGTGA+TGG + chr7.2:12913196-12913215 MS.gene035194:CDS 50.0%
!! TTTTGTTTCTCAGGTCGCGG+AGG + chr7.2:12913032-12913051 MS.gene035194:intron 50.0%
AGGCTTACCCTTCTTCACGG+TGG - chr7.2:12913222-12913241 None:intergenic 55.0%
CGTTTGCCTTCTGCTTGCGT+TGG + chr7.2:12913182-12913201 MS.gene035194:CDS 55.0%
GATCCGCGGGTAACAAGTTC+AGG + chr7.2:12913054-12913073 MS.gene035194:CDS 55.0%
GATGTCACTGGGTCTACCAG+TGG + chr7.2:12913076-12913095 MS.gene035194:CDS 55.0%
GTGATGGCCACCGTGAAGAA+GGG + chr7.2:12913212-12913231 MS.gene035194:CDS 55.0%
TCAGCACACTCCTTCCCGAT+TGG - chr7.2:12913889-12913908 None:intergenic 55.0%
TCGTTCGCCAGCGTAAACCA+TGG + chr7.2:12913273-12913292 MS.gene035194:CDS 55.0%
! AAACCATGGCGCCGAAAGGA+CGG + chr7.2:12913287-12913306 MS.gene035194:CDS 55.0%
!! CGGCAGGAAGCACCTTCTTA+CGG - chr7.2:12913250-12913269 None:intergenic 55.0%
GTCACTGGGTCTACCAGTGG+CGG + chr7.2:12913079-12913098 MS.gene035194:CDS 60.0%
TTCGGCGCCATGGTTTACGC+TGG - chr7.2:12913283-12913302 None:intergenic 60.0%
! GCGTAAACCATGGCGCCGAA+AGG + chr7.2:12913283-12913302 MS.gene035194:CDS 60.0%
! GGTGATGGCCACCGTGAAGA+AGG + chr7.2:12913211-12913230 MS.gene035194:CDS 60.0%
ACACCGTCCTTTCGGCGCCA+TGG - chr7.2:12913293-12913312 None:intergenic 65.0%
CAATTCACCGTCGCCGCCAC+TGG - chr7.2:12913095-12913114 None:intergenic 65.0%
CTCAGGTCGCGGAGGATCCG+CGG + chr7.2:12913040-12913059 MS.gene035194:intron 70.0%
GGGTCTACCAGTGGCGGCGA+CGG + chr7.2:12913085-12913104 MS.gene035194:CDS 70.0%
TCAGGTCGCGGAGGATCCGC+GGG + chr7.2:12913041-12913060 MS.gene035194:intron 70.0%
! CGCTGGCGAACGATGACGGC+AGG - chr7.2:12913266-12913285 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 12912936 12913951 12912936 ID=MS.gene035194
chr7.2 mRNA 12912936 12913951 12912936 ID=MS.gene035194.t1;Parent=MS.gene035194
chr7.2 exon 12912936 12912948 12912936 ID=MS.gene035194.t1.exon1;Parent=MS.gene035194.t1
chr7.2 CDS 12912936 12912948 12912936 ID=cds.MS.gene035194.t1;Parent=MS.gene035194.t1
chr7.2 exon 12913045 12913329 12913045 ID=MS.gene035194.t1.exon2;Parent=MS.gene035194.t1
chr7.2 CDS 12913045 12913329 12913045 ID=cds.MS.gene035194.t1;Parent=MS.gene035194.t1
chr7.2 exon 12913443 12913484 12913443 ID=MS.gene035194.t1.exon3;Parent=MS.gene035194.t1
chr7.2 CDS 12913443 12913484 12913443 ID=cds.MS.gene035194.t1;Parent=MS.gene035194.t1
chr7.2 exon 12913869 12913951 12913869 ID=MS.gene035194.t1.exon4;Parent=MS.gene035194.t1
chr7.2 CDS 12913869 12913951 12913869 ID=cds.MS.gene035194.t1;Parent=MS.gene035194.t1
Gene Sequence

>MS.gene035194

ATGTCGAAGAGAGGTTCGTTCTCATTTTCATCTTCAGATTCTTAGGTCAATTAATCACTTTTACCTACAAAAGCGCGTTTTAATAATCGATTTTCATTTTGTTTCTCAGGTCGCGGAGGATCCGCGGGTAACAAGTTCAGGATGTCACTGGGTCTACCAGTGGCGGCGACGGTGAATTGCGCCGATAACACCGGAGCTAAGAATCTCTACATCATTTCCGTCAAAGGTATCAAAGGAAGGTTGAACCGTTTGCCTTCTGCTTGCGTTGGTGACATGGTGATGGCCACCGTGAAGAAGGGTAAGCCTGATCTCCGTAAGAAGGTGCTTCCTGCCGTCATCGTTCGCCAGCGTAAACCATGGCGCCGAAAGGACGGTGTTTTCATGTACTTCGAAGGTATATTCACATTCTTCATTTTTTTTTTGTTTCAAAATTGAGATTAATCTTAATTTGATGTATATGTTAGTGTGAATGATTCTTACTTAATATTTCTGGTTTGTATTGTGCAGACAATGCTGGTGTTATTGTTAATCCCAAAGGAGAAATGAAAGGTAAAAATTCTATATATCTCTTATTAGTTTTGATTCTATATTATTAAATCCACGATGATAATATCGACGTAGGTGGGTAATATATGTAATGATTGGTGTTTAATAAGTGGAATTAGAGCTTAGTAGCTTAGTATATTGAAATTAGAGTTAATAGTTTAGAATTAATAACACTGCTGTGTCTTCAATAATTGGAATTAGAGTTTAGTAACTTAGTGTTAAAATTGAAATTAGAGTTTAATACTTAATAGTTTAGTATTAATAATCAGTATTAAAATTGGTTGGAGGATCGGGTGAGTGTGTGACTATGTTTTTATCGCCGTTTTTGGTTTTGATGTTGTGCTTTTTGGTTCTTCTCTTGATATTTCGTGTTGATTGTAATTGTAGGGTCTGCTATCACTGGTCCAATCGGGAAGGAGTGTGCTGATCTATGGCCTAGGATTGCAAGTGCTGCTAATGCTATCGTTTAA

Protein sequence

>MS.gene035194.t1

MSKRGRGGSAGNKFRMSLGLPVAATVNCADNTGAKNLYIISVKGIKGRLNRLPSACVGDMVMATVKKGKPDLRKKVLPAVIVRQRKPWRRKDGVFMYFEDNAGVIVNPKGEMKGSAITGPIGKECADLWPRIASAANAIV