AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene34472


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene34472.t1 MTR_1g100753 95.146 206 10 0 1 206 1 206 5.69e-137 382
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene34472.t1 AT5G52190 72.772 202 50 2 10 206 7 208 1.05e-108 310

Find 68 sgRNAs with CRISPR-Local

Find 76 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGAAAATATGGAGGATATT+TGG 0.176760 1.2:-75545774 None:intergenic
CTGCATGCGCTTAGCCCATC+TGG 0.181229 1.2:+75545921 MS.gene34472:CDS
GAGATGGTTGTGTATAAGTT+AGG 0.266389 1.2:+75546252 MS.gene34472:CDS
AGGAGGTGGGTGTGGATGAG+TGG 0.314461 1.2:-75545800 None:intergenic
TTCTATTTCTCAAGAAGATA+TGG 0.316510 1.2:+75545726 MS.gene34472:CDS
CTGACTGCTCAGCCAGAGAT+AGG 0.345539 1.2:+75546090 MS.gene34472:CDS
CTCATTGCCTCCGCTGGTCC+AGG 0.363244 1.2:+75546003 MS.gene34472:CDS
GGAGGTGGGTGTGGATGAGT+GGG 0.368161 1.2:-75545799 None:intergenic
AGATGGTTGTGTATAAGTTA+GGG 0.370004 1.2:+75546253 MS.gene34472:CDS
AGAGGAGATGGTGGAGAGTT+CGG 0.370771 1.2:-75545839 None:intergenic
GAGGTGGGTGTGGATGAGTG+GGG 0.392410 1.2:-75545798 None:intergenic
TGACGCGATCGAACGGCTTC+AGG 0.396616 1.2:-75546294 None:intergenic
TTACGTGCCTGCAAAGACTA+TGG 0.402934 1.2:+75546143 MS.gene34472:CDS
ATTAAGAGGTCGAGAGGAGG+TGG 0.408711 1.2:-75545814 None:intergenic
AGGTCGAGAGGAGGTGGGTG+TGG 0.409570 1.2:-75545808 None:intergenic
AGGTGGGTGTGGATGAGTGG+GGG 0.409657 1.2:-75545797 None:intergenic
TCAAGAAGATATGGCTTCAA+TGG 0.417149 1.2:+75545735 MS.gene34472:CDS
AGGAGATCATTGGTGGTGAT+TGG 0.423466 1.2:-75545982 None:intergenic
TCATTCGCCATAGTCTTTGC+AGG 0.428098 1.2:-75546150 None:intergenic
TCGACAGTGGAGAAGCCGCC+TGG 0.438096 1.2:-75546021 None:intergenic
AAAGACTATGGCGAATGATA+AGG 0.448064 1.2:+75546155 MS.gene34472:CDS
TCGATCGCGTCATACTAATC+TGG 0.449090 1.2:+75546305 MS.gene34472:CDS
TCAAGACCGTTGCTTCCAAT+GGG 0.457112 1.2:+75546195 MS.gene34472:CDS
TTCACACAGGACCCTATCTC+TGG 0.468593 1.2:-75546102 None:intergenic
CTCTACGGTGTTGGTCGTGA+AGG 0.472214 1.2:+75545880 MS.gene34472:CDS
ACTGTTTGTGTTGTTTGAGA+TGG 0.478342 1.2:+75546236 MS.gene34472:CDS
TGCATGCGCTTAGCCCATCT+GGG 0.478380 1.2:+75545922 MS.gene34472:CDS
GATCTCCTCATTGCCTCCGC+TGG 0.482772 1.2:+75545997 MS.gene34472:CDS
AAGACTATGGCGAATGATAA+GGG 0.487111 1.2:+75546156 MS.gene34472:CDS
ATCAAGACCGTTGCTTCCAA+TGG 0.488880 1.2:+75546194 MS.gene34472:CDS
AGATCATTGGTGGTGATTGG+AGG 0.498257 1.2:-75545979 None:intergenic
TGCTCGGTAGCACGATCAAA+CGG 0.506574 1.2:+75546051 MS.gene34472:CDS
CACTGTCGATGCTATATGCT+CGG 0.515036 1.2:+75546035 MS.gene34472:CDS
ATTAGTATGACGCGATCGAA+CGG 0.531911 1.2:-75546301 None:intergenic
GGAGGCAATGAGGAGATCAT+TGG 0.537105 1.2:-75545992 None:intergenic
ATGGGCTAAGCGCATGCAGA+AGG 0.548292 1.2:-75545917 None:intergenic
CCTTCATACACACTCCCCAT+TGG 0.550405 1.2:-75546210 None:intergenic
TGGAGAGTTCGGTGATTAAG+AGG 0.553676 1.2:-75545828 None:intergenic
TCCACCATCTCCTCTCAAAA+CGG 0.554570 1.2:+75545847 MS.gene34472:CDS
GAGTGGTCATGTCGAAGACT+AGG 0.554881 1.2:-75545957 None:intergenic
GGTGAGCTGAGAGGCCCAGA+TGG 0.560524 1.2:-75545936 None:intergenic
TGGCGAATGATAAGGGTGAA+GGG 0.565642 1.2:+75546163 MS.gene34472:CDS
ATGGCGAATGATAAGGGTGA+AGG 0.569678 1.2:+75546162 MS.gene34472:CDS
CTGTGTGAAGCATGCTAGTG+TGG 0.570857 1.2:+75546116 MS.gene34472:CDS
TGACTGCTCAGCCAGAGATA+GGG 0.580644 1.2:+75546091 MS.gene34472:CDS
GGAGAAGCCGCCTGGACCAG+CGG 0.586618 1.2:-75546013 None:intergenic
GGCAATGAGGAGATCATTGG+TGG 0.590925 1.2:-75545989 None:intergenic
GGCGAATGATAAGGGTGAAG+GGG 0.593871 1.2:+75546164 MS.gene34472:CDS
TTAAGAGGTCGAGAGGAGGT+GGG 0.597417 1.2:-75545813 None:intergenic
CTGGACCAGCGGAGGCAATG+AGG 0.603575 1.2:-75546002 None:intergenic
GATGGTTGTGTATAAGTTAG+GGG 0.603756 1.2:+75546254 MS.gene34472:CDS
GTGAGCTGAGAGGCCCAGAT+GGG 0.605981 1.2:-75545935 None:intergenic
ACACTCCCCATTGGAAGCAA+CGG 0.613819 1.2:-75546201 None:intergenic
CCAATGGGGAGTGTGTATGA+AGG 0.617874 1.2:+75546210 MS.gene34472:CDS
GAAGCCGCCTGGACCAGCGG+AGG 0.621222 1.2:-75546010 None:intergenic
TCGGTGATTAAGAGGTCGAG+AGG 0.624408 1.2:-75545820 None:intergenic
CAACACCGTAGAGGAAAACA+CGG 0.626259 1.2:-75545870 None:intergenic
ATTGGTGGTGATTGGAGGAG+TGG 0.628718 1.2:-75545974 None:intergenic
TGTGAAGCATGCTAGTGTGG+TGG 0.631703 1.2:+75546119 MS.gene34472:CDS
CACACTAGCATGCTTCACAC+AGG 0.655929 1.2:-75546115 None:intergenic
TATTTGGTTGCAGATTTGTG+TGG 0.656311 1.2:-75545758 None:intergenic
GTGATTAAGAGGTCGAGAGG+AGG 0.672457 1.2:-75545817 None:intergenic
CGAGCATATAGCATCGACAG+TGG 0.676439 1.2:-75546034 None:intergenic
ATTGCCTCCGCTGGTCCAGG+CGG 0.689688 1.2:+75546006 MS.gene34472:CDS
CTTCACGACCAACACCGTAG+AGG 0.698619 1.2:-75545879 None:intergenic
CGAAGACTAGGTGAGCTGAG+AGG 0.721765 1.2:-75545945 None:intergenic
CAAGACCGTTGCTTCCAATG+GGG 0.722133 1.2:+75546196 MS.gene34472:CDS
TCGGTAGCACGATCAAACGG+TGG 0.788062 1.2:+75546054 MS.gene34472:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TTGAAAATATGGAGGATATT+TGG - chr1.2:75545777-75545796 None:intergenic 25.0%
!! TTCTATTTCTCAAGAAGATA+TGG + chr1.2:75545726-75545745 MS.gene34472:CDS 25.0%
AGATGGTTGTGTATAAGTTA+GGG + chr1.2:75546253-75546272 MS.gene34472:CDS 30.0%
! TATAAGTTAGGGGAGATTTT+AGG + chr1.2:75546264-75546283 MS.gene34472:CDS 30.0%
AAAGACTATGGCGAATGATA+AGG + chr1.2:75546155-75546174 MS.gene34472:CDS 35.0%
AAGACTATGGCGAATGATAA+GGG + chr1.2:75546156-75546175 MS.gene34472:CDS 35.0%
GAGATGGTTGTGTATAAGTT+AGG + chr1.2:75546252-75546271 MS.gene34472:CDS 35.0%
GATGGTTGTGTATAAGTTAG+GGG + chr1.2:75546254-75546273 MS.gene34472:CDS 35.0%
TATTTGGTTGCAGATTTGTG+TGG - chr1.2:75545761-75545780 None:intergenic 35.0%
TCAAGAAGATATGGCTTCAA+TGG + chr1.2:75545735-75545754 MS.gene34472:CDS 35.0%
!! ACTGTTTGTGTTGTTTGAGA+TGG + chr1.2:75546236-75546255 MS.gene34472:CDS 35.0%
ATGAGTGGGGGTTGAAAATA+TGG - chr1.2:75545788-75545807 None:intergenic 40.0%
ATTAGTATGACGCGATCGAA+CGG - chr1.2:75546304-75546323 None:intergenic 40.0%
AGTGGGGGTTGAAAATATGG+AGG - chr1.2:75545785-75545804 None:intergenic 45.0%
ATCAAGACCGTTGCTTCCAA+TGG + chr1.2:75546194-75546213 MS.gene34472:CDS 45.0%
ATGGCGAATGATAAGGGTGA+AGG + chr1.2:75546162-75546181 MS.gene34472:CDS 45.0%
CAACACCGTAGAGGAAAACA+CGG - chr1.2:75545873-75545892 None:intergenic 45.0%
CACTGTCGATGCTATATGCT+CGG + chr1.2:75546035-75546054 MS.gene34472:CDS 45.0%
TCAAGACCGTTGCTTCCAAT+GGG + chr1.2:75546195-75546214 MS.gene34472:CDS 45.0%
TCATTCGCCATAGTCTTTGC+AGG - chr1.2:75546153-75546172 None:intergenic 45.0%
TCCACCATCTCCTCTCAAAA+CGG + chr1.2:75545847-75545866 MS.gene34472:CDS 45.0%
TCGATCGCGTCATACTAATC+TGG + chr1.2:75546305-75546324 MS.gene34472:CDS 45.0%
TGGCGAATGATAAGGGTGAA+GGG + chr1.2:75546163-75546182 MS.gene34472:CDS 45.0%
TTACGTGCCTGCAAAGACTA+TGG + chr1.2:75546143-75546162 MS.gene34472:CDS 45.0%
! TGGAGAGTTCGGTGATTAAG+AGG - chr1.2:75545831-75545850 None:intergenic 45.0%
!! AGATCATTGGTGGTGATTGG+AGG - chr1.2:75545982-75546001 None:intergenic 45.0%
!! AGGAGATCATTGGTGGTGAT+TGG - chr1.2:75545985-75546004 None:intergenic 45.0%
ACACTCCCCATTGGAAGCAA+CGG - chr1.2:75546204-75546223 None:intergenic 50.0%
ATTAAGAGGTCGAGAGGAGG+TGG - chr1.2:75545817-75545836 None:intergenic 50.0%
CAAGACCGTTGCTTCCAATG+GGG + chr1.2:75546196-75546215 MS.gene34472:CDS 50.0%
CACACTAGCATGCTTCACAC+AGG - chr1.2:75546118-75546137 None:intergenic 50.0%
CCTTCATACACACTCCCCAT+TGG - chr1.2:75546213-75546232 None:intergenic 50.0%
CTGTGTGAAGCATGCTAGTG+TGG + chr1.2:75546116-75546135 MS.gene34472:CDS 50.0%
GAGTGGTCATGTCGAAGACT+AGG - chr1.2:75545960-75545979 None:intergenic 50.0%
GGAGGCAATGAGGAGATCAT+TGG - chr1.2:75545995-75546014 None:intergenic 50.0%
GGCAATGAGGAGATCATTGG+TGG - chr1.2:75545992-75546011 None:intergenic 50.0%
GGCGAATGATAAGGGTGAAG+GGG + chr1.2:75546164-75546183 MS.gene34472:CDS 50.0%
GTGATTAAGAGGTCGAGAGG+AGG - chr1.2:75545820-75545839 None:intergenic 50.0%
TCGGTGATTAAGAGGTCGAG+AGG - chr1.2:75545823-75545842 None:intergenic 50.0%
TGACTGCTCAGCCAGAGATA+GGG + chr1.2:75546091-75546110 MS.gene34472:CDS 50.0%
TGCTCGGTAGCACGATCAAA+CGG + chr1.2:75546051-75546070 MS.gene34472:CDS 50.0%
TGTGAAGCATGCTAGTGTGG+TGG + chr1.2:75546119-75546138 MS.gene34472:CDS 50.0%
TTAAGAGGTCGAGAGGAGGT+GGG - chr1.2:75545816-75545835 None:intergenic 50.0%
TTCACACAGGACCCTATCTC+TGG - chr1.2:75546105-75546124 None:intergenic 50.0%
! AACGGCCGTGTTTTCCTCTA+CGG + chr1.2:75545865-75545884 MS.gene34472:CDS 50.0%
! CCAATGGGGAGTGTGTATGA+AGG + chr1.2:75546210-75546229 MS.gene34472:CDS 50.0%
! CGTGTTTTCCTCTACGGTGT+TGG + chr1.2:75545871-75545890 MS.gene34472:CDS 50.0%
!! AGAGGAGATGGTGGAGAGTT+CGG - chr1.2:75545842-75545861 None:intergenic 50.0%
!! ATTGGTGGTGATTGGAGGAG+TGG - chr1.2:75545977-75545996 None:intergenic 50.0%
!! CGAGCATATAGCATCGACAG+TGG - chr1.2:75546037-75546056 None:intergenic 50.0%
!! GAAAACACGGCCGTTTTGAG+AGG - chr1.2:75545860-75545879 None:intergenic 50.0%
CGAAGACTAGGTGAGCTGAG+AGG - chr1.2:75545948-75545967 None:intergenic 55.0%
CTGACTGCTCAGCCAGAGAT+AGG + chr1.2:75546090-75546109 MS.gene34472:CDS 55.0%
CTTCACGACCAACACCGTAG+AGG - chr1.2:75545882-75545901 None:intergenic 55.0%
TCGGTAGCACGATCAAACGG+TGG + chr1.2:75546054-75546073 MS.gene34472:CDS 55.0%
TGCATGCGCTTAGCCCATCT+GGG + chr1.2:75545922-75545941 MS.gene34472:CDS 55.0%
! ATGGGCTAAGCGCATGCAGA+AGG - chr1.2:75545920-75545939 None:intergenic 55.0%
!! CTCTACGGTGTTGGTCGTGA+AGG + chr1.2:75545880-75545899 MS.gene34472:CDS 55.0%
!!! ACGGCCGTTTTGAGAGGAGA+TGG - chr1.2:75545854-75545873 None:intergenic 55.0%
!!! GCCGTTTTGAGAGGAGATGG+TGG - chr1.2:75545851-75545870 None:intergenic 55.0%
AGGAGGTGGGTGTGGATGAG+TGG - chr1.2:75545803-75545822 None:intergenic 60.0%
AGGTGGGTGTGGATGAGTGG+GGG - chr1.2:75545800-75545819 None:intergenic 60.0%
CTGCATGCGCTTAGCCCATC+TGG + chr1.2:75545921-75545940 MS.gene34472:CDS 60.0%
GAGGTGGGTGTGGATGAGTG+GGG - chr1.2:75545801-75545820 None:intergenic 60.0%
GATCTCCTCATTGCCTCCGC+TGG + chr1.2:75545997-75546016 MS.gene34472:CDS 60.0%
GGAGGTGGGTGTGGATGAGT+GGG - chr1.2:75545802-75545821 None:intergenic 60.0%
GTGAGCTGAGAGGCCCAGAT+GGG - chr1.2:75545938-75545957 None:intergenic 60.0%
TGACGCGATCGAACGGCTTC+AGG - chr1.2:75546297-75546316 None:intergenic 60.0%
AGGTCGAGAGGAGGTGGGTG+TGG - chr1.2:75545811-75545830 None:intergenic 65.0%
ATTGCCTCCGCTGGTCCAGG+CGG + chr1.2:75546006-75546025 MS.gene34472:CDS 65.0%
CTCATTGCCTCCGCTGGTCC+AGG + chr1.2:75546003-75546022 MS.gene34472:CDS 65.0%
CTGGACCAGCGGAGGCAATG+AGG - chr1.2:75546005-75546024 None:intergenic 65.0%
GGTGAGCTGAGAGGCCCAGA+TGG - chr1.2:75545939-75545958 None:intergenic 65.0%
TCGACAGTGGAGAAGCCGCC+TGG - chr1.2:75546024-75546043 None:intergenic 65.0%
GGAGAAGCCGCCTGGACCAG+CGG - chr1.2:75546016-75546035 None:intergenic 70.0%
GAAGCCGCCTGGACCAGCGG+AGG - chr1.2:75546013-75546032 None:intergenic 75.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 75545712 75546332 75545712 ID=MS.gene34472
chr1.2 mRNA 75545712 75546332 75545712 ID=MS.gene34472.t1;Parent=MS.gene34472
chr1.2 exon 75545712 75546332 75545712 ID=MS.gene34472.t1.exon1;Parent=MS.gene34472.t1
chr1.2 CDS 75545712 75546332 75545712 ID=cds.MS.gene34472.t1;Parent=MS.gene34472.t1
Gene Sequence

>MS.gene34472

ATGGCTTCTTCTAGTTCTATTTCTCAAGAAGATATGGCTTCAATGGCCACACAAATCTGCAACCAAATATCCTCCATATTTTCAACCCCCACTCATCCACACCCACCTCCTCTCGACCTCTTAATCACCGAACTCTCCACCATCTCCTCTCAAAACGGCCGTGTTTTCCTCTACGGTGTTGGTCGTGAAGGCATAATGCTCAAAGCCTTCTGCATGCGCTTAGCCCATCTGGGCCTCTCAGCTCACCTAGTCTTCGACATGACCACTCCTCCAATCACCACCAATGATCTCCTCATTGCCTCCGCTGGTCCAGGCGGCTTCTCCACTGTCGATGCTATATGCTCGGTAGCACGATCAAACGGTGGAAGAGTGCTTCTTCTGACTGCTCAGCCAGAGATAGGGTCCTGTGTGAAGCATGCTAGTGTGGTGGCTTACGTGCCTGCAAAGACTATGGCGAATGATAAGGGTGAAGGGGATGTGAAATCAAGACCGTTGCTTCCAATGGGGAGTGTGTATGAAGGTGCACTGTTTGTGTTGTTTGAGATGGTTGTGTATAAGTTAGGGGAGATTTTAGGTGAGAGTCCTGAAGCCGTTCGATCGCGTCATACTAATCTGGAATGA

Protein sequence

>MS.gene34472.t1

MASSSSISQEDMASMATQICNQISSIFSTPTHPHPPPLDLLITELSTISSQNGRVFLYGVGREGIMLKAFCMRLAHLGLSAHLVFDMTTPPITTNDLLIASAGPGGFSTVDAICSVARSNGGRVLLLTAQPEIGSCVKHASVVAYVPAKTMANDKGEGDVKSRPLLPMGSVYEGALFVLFEMVVYKLGEILGESPEAVRSRHTNLE