AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene050303


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene050303.t1 MTR_7g104930 100.000 80 0 0 1 80 1 80 1.30e-53 161
MS.gene050303.t1 MTR_6g066250 90.476 63 6 0 14 76 15 77 5.20e-35 114
MS.gene050303.t1 MTR_7g065100 38.028 71 35 1 9 70 10 80 9.19e-13 58.5
MS.gene050303.t1 MTR_8g036205 34.722 72 38 1 9 71 10 81 5.11e-11 54.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene050303.t1 AT2G23930 91.139 79 7 0 1 79 1 79 2.77e-49 150
MS.gene050303.t1 AT3G11500 91.139 79 7 0 1 79 1 79 4.56e-49 149
MS.gene050303.t1 AT3G11500 91.139 79 7 0 1 79 1 79 4.56e-49 149
MS.gene050303.t1 AT2G23930 88.679 53 6 0 27 79 1 53 1.63e-28 97.1
MS.gene050303.t1 AT2G03870 38.028 71 35 1 9 70 10 80 1.59e-12 57.8
MS.gene050303.t1 AT2G03870 38.028 71 35 1 9 70 10 80 1.59e-12 57.8

Find 18 sgRNAs with CRISPR-Local

Find 59 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTCGACCAATTTATGAATT+TGG 0.200064 7.2:-8113475 MS.gene050303:CDS
CAACAACCAAATTCATAAAT+TGG 0.293346 7.2:+8113469 None:intergenic
AATGCTTACTTCTTCAAATC+TGG 0.328903 7.2:+8114482 None:intergenic
TCTTTCACCATGAGTAGGTC+AGG 0.413563 7.2:-8114512 None:intergenic
AATTAGATGCTTCTGTTCAC+TGG 0.418853 7.2:+8113242 None:intergenic
AATGCAAATCGCATGATTGT+TGG 0.502115 7.2:-8113510 MS.gene050303:CDS
TCATAAATTGGTCGAAGCCA+CGG 0.529169 7.2:+8113481 None:intergenic
CGCTTTCTGCAGGTGATCAG+AGG 0.541314 7.2:-8113296 MS.gene050303:intron
TTTGTTCTTTCACCATGAGT+AGG 0.559149 7.2:-8114517 None:intergenic
GACAATACTGTGGAGGTGAA+TGG 0.565835 7.2:-8113447 MS.gene050303:CDS
TGGCTGCCCTGACCTACTCA+TGG 0.567702 7.2:+8114505 None:intergenic
AAATAGTGTGGTCACTGTAG+AGG 0.581425 7.2:-8113273 MS.gene050303:CDS
CTTTCACCATGAGTAGGTCA+GGG 0.590203 7.2:-8114511 None:intergenic
GCTTACTTCTTCAAATCTGG+TGG 0.598528 7.2:+8114485 None:intergenic
ATGATTGTTGGTACTCTCCG+TGG 0.628986 7.2:-8113498 MS.gene050303:CDS
TTTGGTTGTTGACAATACTG+TGG 0.664176 7.2:-8113457 MS.gene050303:CDS
GGTTGTTGACAATACTGTGG+AGG 0.683546 7.2:-8113454 MS.gene050303:CDS
GGTGATCAGAGGAAATAGTG+TGG 0.728293 7.2:-8113285 MS.gene050303:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AACCTTTTTTTTTTTTTTAA+TGG + chr7.2:8113540-8113559 None:intergenic 10.0%
!!! TAATTTTTTAACTGAATTTT+TGG - chr7.2:8113608-8113627 MS.gene050303:intron 10.0%
!! TATTCATATAAATCTTTCTA+CGG - chr7.2:8114034-8114053 MS.gene050303:intron 15.0%
!! TGCCATTAAAAAAAAAAAAA+AGG - chr7.2:8113535-8113554 MS.gene050303:intron 15.0%
!! ATATGGTAGCTTATATTATT+TGG - chr7.2:8113893-8113912 MS.gene050303:intron 20.0%
!! ATTCATAAAGGAATGAAAAA+CGG + chr7.2:8113981-8114000 None:intergenic 20.0%
!! ATTCATATAAATCTTTCTAC+GGG - chr7.2:8114035-8114054 MS.gene050303:intron 20.0%
!!! TATGCATTTTTTTTTTCGAT+AGG - chr7.2:8113365-8113384 MS.gene050303:intron 20.0%
!!! TTTTCATTCCTTTATGAATT+GGG - chr7.2:8113982-8114001 MS.gene050303:intron 20.0%
!!! TTTTTCATTCCTTTATGAAT+TGG - chr7.2:8113981-8114000 MS.gene050303:intron 20.0%
! ACATGTGTATAAATGGATAT+TGG - chr7.2:8114133-8114152 MS.gene050303:intron 25.0%
! ATATGTATCTATGTACATGT+GGG - chr7.2:8114106-8114125 MS.gene050303:intron 25.0%
! CAACAACCAAATTCATAAAT+TGG + chr7.2:8114281-8114300 None:intergenic 25.0%
! TAACCACTTCTTCTATTAAT+TGG + chr7.2:8113751-8113770 None:intergenic 25.0%
! TTTCATTCCTTTATGAATTG+GGG - chr7.2:8113983-8114002 MS.gene050303:intron 25.0%
!!! TTTTTTTTTCGATAGGTACA+TGG - chr7.2:8113372-8113391 MS.gene050303:intron 25.0%
AATGCTTACTTCTTCAAATC+TGG + chr7.2:8113268-8113287 None:intergenic 30.0%
AGGAATTATACTGAAGTATG+TGG - chr7.2:8114193-8114212 MS.gene050303:intron 30.0%
CATGTACATAGATACATATC+AGG + chr7.2:8114105-8114124 None:intergenic 30.0%
CTTCGACCAATTTATGAATT+TGG - chr7.2:8114272-8114291 MS.gene050303:intron 30.0%
GATATGTATCTATGTACATG+TGG - chr7.2:8114105-8114124 MS.gene050303:intron 30.0%
GATCCAATTAATAGAAGAAG+TGG - chr7.2:8113745-8113764 MS.gene050303:intron 30.0%
GCAATGAGAAAAATGACATA+GGG - chr7.2:8114322-8114341 MS.gene050303:intron 30.0%
GGGTTTAACATGTGTATAAA+TGG - chr7.2:8114126-8114145 MS.gene050303:intron 30.0%
TGTAATTTCTCTCGCTTATA+TGG - chr7.2:8113876-8113895 MS.gene050303:intron 30.0%
TTCATTCCTTTATGAATTGG+GGG - chr7.2:8113984-8114003 MS.gene050303:intron 30.0%
! TTTTGAATTTCTACTGCACT+TGG - chr7.2:8113332-8113351 MS.gene050303:intron 30.0%
!! ACTTGATAATGCATAGTATG+AGG + chr7.2:8114360-8114379 None:intergenic 30.0%
!! TTTTGTAGTTTGTGTGAAGA+TGG - chr7.2:8113560-8113579 MS.gene050303:intron 30.0%
AATGCAAATCGCATGATTGT+TGG - chr7.2:8114237-8114256 MS.gene050303:intron 35.0%
CATGTCTTATGATTTAGCTG+AGG - chr7.2:8114173-8114192 MS.gene050303:intron 35.0%
GCATTATAAAGTGAAGTTCG+AGG - chr7.2:8113915-8113934 MS.gene050303:intron 35.0%
GGCAATGAGAAAAATGACAT+AGG - chr7.2:8114321-8114340 MS.gene050303:intron 35.0%
TGAGAAAAATGACATAGGGA+TGG - chr7.2:8114326-8114345 MS.gene050303:intron 35.0%
TTCTAGGTACAAGATTGAGT+GGG - chr7.2:8113659-8113678 MS.gene050303:intron 35.0%
TTTCTAGGTACAAGATTGAG+TGG - chr7.2:8113658-8113677 MS.gene050303:intron 35.0%
TTTGGTTGTTGACAATACTG+TGG - chr7.2:8114290-8114309 MS.gene050303:intron 35.0%
AAATAGTGTGGTCACTGTAG+AGG - chr7.2:8114474-8114493 MS.gene050303:intron 40.0%
CACTATTGCTATGAGTTCAG+TGG - chr7.2:8113635-8113654 MS.gene050303:intron 40.0%
CATATCAGGAACAAACAGAC+AGG + chr7.2:8114091-8114110 None:intergenic 40.0%
CATCTTATAGAGCTTGAGCT+AGG - chr7.2:8114405-8114424 MS.gene050303:intron 40.0%
CGTAATCCCCCAATTCATAA+AGG + chr7.2:8113993-8114012 None:intergenic 40.0%
CTATGAGTTCAGTGGTTTCT+AGG - chr7.2:8113643-8113662 MS.gene050303:intron 40.0%
GAAAAATGACATAGGGATGG+TGG - chr7.2:8114329-8114348 MS.gene050303:intron 40.0%
GCTTACTTCTTCAAATCTGG+TGG + chr7.2:8113265-8113284 None:intergenic 40.0%
GGACAAACAGCTTCAAAGTA+AGG - chr7.2:8113393-8113412 MS.gene050303:intron 40.0%
TCATAAATTGGTCGAAGCCA+CGG + chr7.2:8114269-8114288 None:intergenic 40.0%
TGGATTGCAGAGAAAAAGTG+TGG - chr7.2:8113823-8113842 MS.gene050303:intron 40.0%
! AATTTTCACTCGCTTTCTGC+AGG - chr7.2:8114441-8114460 MS.gene050303:intron 40.0%
! CTGTATGTGAGAGCTTTTAC+TGG - chr7.2:8113786-8113805 MS.gene050303:intron 40.0%
ATGATTGTTGGTACTCTCCG+TGG - chr7.2:8114249-8114268 MS.gene050303:intron 45.0%
GACAATACTGTGGAGGTGAA+TGG - chr7.2:8114300-8114319 MS.gene050303:intron 45.0%
GGTGATCAGAGGAAATAGTG+TGG - chr7.2:8114462-8114481 MS.gene050303:intron 45.0%
GGTTGTTGACAATACTGTGG+AGG - chr7.2:8114293-8114312 MS.gene050303:intron 45.0%
! TACTGGCTGCGAACATTCTT+TGG - chr7.2:8113803-8113822 MS.gene050303:intron 45.0%
!! CTATATATATAAATATAAAA+AGG + chr7.2:8113513-8113532 None:intergenic 5.0%
!!! TTTTTTTTTTAAATCAAATT+TGG - chr7.2:8113464-8113483 MS.gene050303:CDS 5.0%
GTGTGGCATGTCTTTGCTAC+TGG - chr7.2:8113840-8113859 MS.gene050303:intron 50.0%
CGCTTTCTGCAGGTGATCAG+AGG - chr7.2:8114451-8114470 MS.gene050303:intron 55.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 8113244 8114525 8113244 ID=MS.gene050303
chr7.2 mRNA 8113244 8114525 8113244 ID=MS.gene050303.t1;Parent=MS.gene050303
chr7.2 exon 8114491 8114525 8114491 ID=MS.gene050303.t1.exon1;Parent=MS.gene050303.t1
chr7.2 CDS 8114491 8114525 8114491 ID=cds.MS.gene050303.t1;Parent=MS.gene050303.t1
chr7.2 exon 8114360 8114382 8114360 ID=MS.gene050303.t1.exon2;Parent=MS.gene050303.t1
chr7.2 CDS 8114360 8114382 8114360 ID=cds.MS.gene050303.t1;Parent=MS.gene050303.t1
chr7.2 exon 8113419 8113540 8113419 ID=MS.gene050303.t1.exon3;Parent=MS.gene050303.t1
chr7.2 CDS 8113419 8113540 8113419 ID=cds.MS.gene050303.t1;Parent=MS.gene050303.t1
chr7.2 exon 8113244 8113306 8113244 ID=MS.gene050303.t1.exon4;Parent=MS.gene050303.t1
chr7.2 CDS 8113244 8113306 8113244 ID=cds.MS.gene050303.t1;Parent=MS.gene050303.t1
Gene Sequence

>MS.gene050303

ATGAGTAGGTCAGGGCAGCCACCAGATTTGAAGAAGTAAGCATTCTTCACACTTTTCAATTCATTTTTTCATTACAATTTTTCGTTGATTTTGAATTTCTACTGCACTTGGTCGATACTGATATGCATTTTTTTTTTCGATAGGTACATGGACAAACAGCTTCAAAGTAAGGTTCTTTCTGCTAATTGTTCTTACTTCTTATCTTCTTTCTTTCTTTGTTTTTTTTTTTTAAATCAAATTTGGTTTTTTGTAGTATTTGTTCAGTTCCTTTTTATATTTATATATATAGTTTGCCATTAAAAAAAAAAAAAAGGTTTTTTGTAGTTTGTGTGAAGATGGAGTGTTTAGTAGAATTGCAAAAATATAATTTTTTAACTGAATTTTTGGTTTTCACTATTGCTATGAGTTCAGTGGTTTCTAGGTACAAGATTGAGTGGGATTTTGATTTTTTATCAATGAATAGCTGAAGATTGTTATGTTCAACTTATAATATTTAAGCATGATCCAATTAATAGAAGAAGTGGTTAAGAATGTATGAGTGTCTGTATGTGAGAGCTTTTACTGGCTGCGAACATTCTTTGGATTGCAGAGAAAAAGTGTGGCATGTCTTTGCTACTGGTTGATACTTTGAATGTAATTTCTCTCGCTTATATGGTAGCTTATATTATTTGGCATTATAAAGTGAAGTTCGAGGAAGTCAATTACTCAATTACAGCTTAATCATTATTTTTTATCCGTTTTTCATTCCTTTATGAATTGGGGGATTACGCTTATTAGTGATTGTGTGAACTATTCATATAAATCTTTCTACGGGTTTGTTTAGTAGTTTTGAATTTTTAAACTGCCTGTCTGTTTGTTCCTGATATGTATCTATGTACATGTGGGTTTAACATGTGTATAAATGGATATTGGTGCTTCTTTGCTGAAAACATGTCTTATGATTTAGCTGAGGAATTATACTGAAGTATGTGGTATTATCTTGCAGTCAAGCTGAATGCAAATCGCATGATTGTTGGTACTCTCCGTGGCTTCGACCAATTTATGAATTTGGTTGTTGACAATACTGTGGAGGTGAATGGCAATGAGAAAAATGACATAGGGATGGTGGTAAGTCCTCATACTATGCATTATCAAGTTATAATATTAGTAGTTTATGTATAGCATCTTATAGAGCTTGAGCTAGGTTTTATATTTGTTAATTTTCACTCGCTTTCTGCAGGTGATCAGAGGAAATAGTGTGGTCACTGTAGAGGCGCTTGAACCAGTGAACAGAAGCATCTAA

Protein sequence

>MS.gene050303.t1

MSRSGQPPDLKKYMDKQLQIKLNANRMIVGTLRGFDQFMNLVVDNTVEVNGNEKNDIGMVVIRGNSVVTVEALEPVNRSI