AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene050170


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene050170.t1 MTR_7g100540 99.213 127 1 0 1 127 125 251 3.06e-90 261
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene050170.t1 AT2G37240 81.102 127 24 0 1 127 122 248 8.46e-75 223
MS.gene050170.t1 AT5G65840 32.031 128 83 3 1 126 145 270 4.23e-13 64.3

Find 33 sgRNAs with CRISPR-Local

Find 73 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTAAGATATCTTCAATTTC+TGG 0.106966 7.2:+11666391 None:intergenic
GCTGAGCAAACAAAATTTAA+AGG 0.173089 7.2:-11667288 MS.gene050170:CDS
GAGGCCTTACAATTTGTTTC+TGG 0.198475 7.2:-11667140 MS.gene050170:CDS
TTAAGATATCTTCAATTTCT+GGG 0.369252 7.2:+11666392 None:intergenic
TGTTTGCTCAGCAAAGGCTT+TGG 0.376817 7.2:+11667299 None:intergenic
TAAGATAATAGAATTGTATA+TGG 0.387939 7.2:-11666947 MS.gene050170:CDS
CATACACACCTTGTGAATAT+AGG 0.399241 7.2:+11666539 None:intergenic
CAAGGAGGAATTATAGTTGC+AGG 0.415807 7.2:-11666582 MS.gene050170:CDS
GGTGTAGCACTTGTATTGAT+TGG 0.434510 7.2:-11667418 MS.gene050170:CDS
TTGGAAGCTTTCATTCGAAA+AGG 0.452486 7.2:-11666908 MS.gene050170:CDS
TGGAAGGTTATCGACAAGAT+TGG 0.474176 7.2:-11666927 MS.gene050170:CDS
AACTCCAGAAACAAATTGTA+AGG 0.478715 7.2:+11667136 None:intergenic
GGAATTATAGTTGCAGGTCC+TGG 0.514996 7.2:-11666576 MS.gene050170:CDS
CCCCGCTCAATCGTCATATG+AGG 0.519619 7.2:-11667159 MS.gene050170:CDS
GCCTCATATGACGATTGAGC+GGG 0.522306 7.2:+11667158 None:intergenic
GGCTGTTTCTCTTACTTTGG+GGG 0.526708 7.2:+11667100 None:intergenic
TGGACCTGGCAACATTGATC+AGG 0.530445 7.2:-11667398 MS.gene050170:intron
ATAGTTGCAGGTCCTGGTAA+AGG 0.534747 7.2:-11666570 MS.gene050170:CDS
CAGGATATAATGGATGCGTC+TGG 0.535386 7.2:-11667439 None:intergenic
CATGAGTAGGACAAAGAAGC+AGG 0.545391 7.2:-11666421 MS.gene050170:intron
TGTACCTGATCAATGTTGCC+AGG 0.557725 7.2:+11667394 None:intergenic
ATAATAGAATTGTATATGGA+AGG 0.563362 7.2:-11666943 MS.gene050170:CDS
AAGGATACTGTTAGCAGAGG+AGG 0.583125 7.2:-11666889 MS.gene050170:CDS
TAGGAGATGTTACCTTTACC+AGG 0.585319 7.2:+11666558 None:intergenic
TGACACTGTGGCAGGCAACA+AGG 0.606308 7.2:-11666600 MS.gene050170:intron
ATACTGTTAGCAGAGGAGGC+TGG 0.626834 7.2:-11666885 MS.gene050170:intron
GCACTTGTATTGATTGGACC+TGG 0.646245 7.2:-11667412 MS.gene050170:CDS
GAGCAAACAAAATTTAAAGG+AGG 0.650865 7.2:-11667285 MS.gene050170:intron
GAAAAGGATACTGTTAGCAG+AGG 0.658204 7.2:-11666892 MS.gene050170:CDS
GGCCTCATATGACGATTGAG+CGG 0.670971 7.2:+11667157 None:intergenic
CCTCATATGACGATTGAGCG+GGG 0.684441 7.2:+11667159 None:intergenic
TAACATCTCCTATATTCACA+AGG 0.715027 7.2:-11666547 MS.gene050170:intron
CACTGTGGCAGGCAACAAGG+AGG 0.721602 7.2:-11666597 MS.gene050170:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTACTTATGAATAAAAAATT+AGG + chr7.2:11666729-11666748 None:intergenic 10.0%
!! ATTCTATAAAATTGAGTATA+GGG + chr7.2:11667297-11667316 None:intergenic 15.0%
!! TAAGATAATAGAATTGTATA+TGG - chr7.2:11666858-11666877 MS.gene050170:intron 15.0%
!! TATTCTATAAAATTGAGTAT+AGG + chr7.2:11667298-11667317 None:intergenic 15.0%
!!! AGTTTTTGTTAAATATACAA+AGG - chr7.2:11666795-11666814 MS.gene050170:intron 15.0%
!!! CAATTTTATAGAATATATCT+TGG - chr7.2:11667303-11667322 MS.gene050170:CDS 15.0%
!! AATATATCTTGGAATATTCA+TGG - chr7.2:11667314-11667333 MS.gene050170:intron 20.0%
!! AGTAATAAATAAAATCCATG+TGG - chr7.2:11666744-11666763 MS.gene050170:intron 20.0%
!! ATAATAGAATTGTATATGGA+AGG - chr7.2:11666862-11666881 MS.gene050170:intron 20.0%
!! CTAATACCTATATTTAATAC+AGG - chr7.2:11666483-11666502 MS.gene050170:intron 20.0%
!! TACATTGAATCTATAATTAG+AGG - chr7.2:11667073-11667092 MS.gene050170:intron 20.0%
!! TGTCAAGTTCATAATATTAA+AGG + chr7.2:11667190-11667209 None:intergenic 20.0%
!! TTAAGATATCTTCAATTTCT+GGG + chr7.2:11667416-11667435 None:intergenic 20.0%
!!! TTTAAGATATCTTCAATTTC+TGG + chr7.2:11667417-11667436 None:intergenic 20.0%
!! GATGTCTTCTTTATCATTTT+TGG - chr7.2:11667021-11667040 MS.gene050170:intron 25.0%
AACTCCAGAAACAAATTGTA+AGG + chr7.2:11666672-11666691 None:intergenic 30.0%
ATATTATGAACTTGACACTG+TGG - chr7.2:11667193-11667212 MS.gene050170:intron 30.0%
ATTATCCATACCACTCTTAA+AGG - chr7.2:11666989-11667008 MS.gene050170:intron 30.0%
CTTTGGCCTGTATTAAATAT+AGG + chr7.2:11666492-11666511 None:intergenic 30.0%
GAGCAAACAAAATTTAAAGG+AGG - chr7.2:11666520-11666539 MS.gene050170:intron 30.0%
GCTGAGCAAACAAAATTTAA+AGG - chr7.2:11666517-11666536 MS.gene050170:intron 30.0%
TAACATCTCCTATATTCACA+AGG - chr7.2:11667258-11667277 MS.gene050170:intron 30.0%
TGCAACAGCTAAAATTAACA+CGG + chr7.2:11666824-11666843 None:intergenic 30.0%
!! AAATTTTGTTTGCTCAGCAA+AGG + chr7.2:11666515-11666534 None:intergenic 30.0%
CAACAGCTAAAATTAACACG+GGG + chr7.2:11666822-11666841 None:intergenic 35.0%
CATACACACCTTGTGAATAT+AGG + chr7.2:11667269-11667288 None:intergenic 35.0%
GATAGTGTAAGACTTCTTGT+AGG + chr7.2:11666959-11666978 None:intergenic 35.0%
GCAACAGCTAAAATTAACAC+GGG + chr7.2:11666823-11666842 None:intergenic 35.0%
TACATTACAGAAACTAGCAC+AGG + chr7.2:11666567-11666586 None:intergenic 35.0%
TGATAAAGAAGACATCACAG+AGG + chr7.2:11667017-11667036 None:intergenic 35.0%
TGATAGAAGAAAGCTCTCTT+TGG - chr7.2:11667120-11667139 MS.gene050170:CDS 35.0%
TTGGAAGCTTTCATTCGAAA+AGG - chr7.2:11666897-11666916 MS.gene050170:CDS 35.0%
!! TAGGCTGTTTCTCTTACTTT+GGG + chr7.2:11666710-11666729 None:intergenic 35.0%
!! TCTGCATAGATTTCTAGAAC+AGG + chr7.2:11666626-11666645 None:intergenic 35.0%
!! TTAGGCTGTTTCTCTTACTT+TGG + chr7.2:11666711-11666730 None:intergenic 35.0%
!! TTCCAGCATTCTAAGATGTT+AGG + chr7.2:11666455-11666474 None:intergenic 35.0%
!!! AATTTTAGCTGTTGCACTAC+AGG - chr7.2:11666828-11666847 MS.gene050170:intron 35.0%
ATCAGCACTTTAACAGAACC+TGG - chr7.2:11666597-11666616 MS.gene050170:intron 40.0%
CAAGGAGGAATTATAGTTGC+AGG - chr7.2:11667223-11667242 MS.gene050170:intron 40.0%
CTCCTAACATCTTAGAATGC+TGG - chr7.2:11666450-11666469 MS.gene050170:intron 40.0%
CTTTCTTCTATCAGCAAGCA+AGG + chr7.2:11667113-11667132 None:intergenic 40.0%
GAAAAGGATACTGTTAGCAG+AGG - chr7.2:11666913-11666932 MS.gene050170:CDS 40.0%
TAGGAGATGTTACCTTTACC+AGG + chr7.2:11667250-11667269 None:intergenic 40.0%
TGGAAGGTTATCGACAAGAT+TGG - chr7.2:11666878-11666897 MS.gene050170:intron 40.0%
! AGGATCCTTTAAGAGTGGTA+TGG + chr7.2:11666997-11667016 None:intergenic 40.0%
! GAGGCCTTACAATTTGTTTC+TGG - chr7.2:11666665-11666684 MS.gene050170:intron 40.0%
! GGTGTAGCACTTGTATTGAT+TGG - chr7.2:11666387-11666406 MS.gene050170:CDS 40.0%
! TCTTACTTTGGGGGTAAATG+TGG + chr7.2:11666699-11666718 None:intergenic 40.0%
!! AGGCTGTTTCTCTTACTTTG+GGG + chr7.2:11666709-11666728 None:intergenic 40.0%
!! GATTTCTAGAACAGGTAACC+AGG + chr7.2:11666618-11666637 None:intergenic 40.0%
AAGGATACTGTTAGCAGAGG+AGG - chr7.2:11666916-11666935 MS.gene050170:CDS 45.0%
ATAGTTGCAGGTCCTGGTAA+AGG - chr7.2:11667235-11667254 MS.gene050170:intron 45.0%
CATGAGTAGGACAAAGAAGC+AGG - chr7.2:11667384-11667403 MS.gene050170:intron 45.0%
GCAACATTGATCAGGTACAC+GGG - chr7.2:11666415-11666434 MS.gene050170:CDS 45.0%
GGAATTATAGTTGCAGGTCC+TGG - chr7.2:11667229-11667248 MS.gene050170:intron 45.0%
GGCAACATTGATCAGGTACA+CGG - chr7.2:11666414-11666433 MS.gene050170:CDS 45.0%
TATGAACTTGACACTGTGGC+AGG - chr7.2:11667197-11667216 MS.gene050170:intron 45.0%
TCAAACGTGCTCACATGAGT+AGG - chr7.2:11667371-11667390 MS.gene050170:intron 45.0%
TGTACCTGATCAATGTTGCC+AGG + chr7.2:11666414-11666433 None:intergenic 45.0%
TGTTTGCTCAGCAAAGGCTT+TGG + chr7.2:11666509-11666528 None:intergenic 45.0%
! CACAGAGGATCCTTTAAGAG+TGG + chr7.2:11667002-11667021 None:intergenic 45.0%
!! GCACTTGTATTGATTGGACC+TGG - chr7.2:11666393-11666412 MS.gene050170:CDS 45.0%
!! GGCTGTTTCTCTTACTTTGG+GGG + chr7.2:11666708-11666727 None:intergenic 45.0%
ACACACATCACTCAGCCACA+TGG + chr7.2:11666762-11666781 None:intergenic 50.0%
ATACTGTTAGCAGAGGAGGC+TGG - chr7.2:11666920-11666939 MS.gene050170:CDS 50.0%
CCTCATATGACGATTGAGCG+GGG + chr7.2:11666649-11666668 None:intergenic 50.0%
GCCTCATATGACGATTGAGC+GGG + chr7.2:11666650-11666669 None:intergenic 50.0%
GGCCTCATATGACGATTGAG+CGG + chr7.2:11666651-11666670 None:intergenic 50.0%
TGGACCTGGCAACATTGATC+AGG - chr7.2:11666407-11666426 MS.gene050170:CDS 50.0%
TTAGCTGTTGCACTACAGGC+AGG - chr7.2:11666832-11666851 MS.gene050170:intron 50.0%
CCCCGCTCAATCGTCATATG+AGG - chr7.2:11666646-11666665 MS.gene050170:intron 55.0%
TGACACTGTGGCAGGCAACA+AGG - chr7.2:11667205-11667224 MS.gene050170:intron 55.0%
CACTGTGGCAGGCAACAAGG+AGG - chr7.2:11667208-11667227 MS.gene050170:intron 60.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 11666375 11667452 11666375 ID=MS.gene050170
chr7.2 mRNA 11666375 11667452 11666375 ID=MS.gene050170.t1;Parent=MS.gene050170
chr7.2 exon 11667399 11667452 11667399 ID=MS.gene050170.t1.exon1;Parent=MS.gene050170.t1
chr7.2 CDS 11667399 11667452 11667399 ID=cds.MS.gene050170.t1;Parent=MS.gene050170.t1
chr7.2 exon 11667286 11667322 11667286 ID=MS.gene050170.t1.exon2;Parent=MS.gene050170.t1
chr7.2 CDS 11667286 11667322 11667286 ID=cds.MS.gene050170.t1;Parent=MS.gene050170.t1
chr7.2 exon 11667115 11667194 11667115 ID=MS.gene050170.t1.exon3;Parent=MS.gene050170.t1
chr7.2 CDS 11667115 11667194 11667115 ID=cds.MS.gene050170.t1;Parent=MS.gene050170.t1
chr7.2 exon 11666886 11666977 11666886 ID=MS.gene050170.t1.exon4;Parent=MS.gene050170.t1
chr7.2 CDS 11666886 11666977 11666886 ID=cds.MS.gene050170.t1;Parent=MS.gene050170.t1
chr7.2 exon 11666548 11666608 11666548 ID=MS.gene050170.t1.exon5;Parent=MS.gene050170.t1
chr7.2 CDS 11666548 11666608 11666548 ID=cds.MS.gene050170.t1;Parent=MS.gene050170.t1
chr7.2 exon 11666375 11666434 11666375 ID=MS.gene050170.t1.exon6;Parent=MS.gene050170.t1
chr7.2 CDS 11666375 11666434 11666375 ID=cds.MS.gene050170.t1;Parent=MS.gene050170.t1
Gene Sequence

>MS.gene050170

ATGGATGCGTCTGGTGTAGCACTTGTATTGATTGGACCTGGCAACATTGATCAGGTACACGGGATTTTCTGCATTCTCCTAACATCTTAGAATGCTGGAATTTTGTAGCTAATACCTATATTTAATACAGGCCAAAGCCTTTGCTGAGCAAACAAAATTTAAAGGAGGTACTCTACAGCTGACATAATACCTGTGCTAGTTTCTGTAATGTACTCATCTTATATCAGCACTTTAACAGAACCTGGTTACCTGTTCTAGAAATCTATGCAGACCCCGCTCAATCGTCATATGAGGCCTTACAATTTGTTTCTGGAGTTTTAACCACATTTACCCCCAAAGTAAGAGAAACAGCCTAATTTTTTATTCATAAGTAATAAATAAAATCCATGTGGCTGAGTGATGTGTGTGTTTATAAATTGAAGTTTTTGTTAAATATACAAAGGACCCCGTGTTAATTTTAGCTGTTGCACTACAGGCAGGTCTTAAGATAATAGAATTGTATATGGAAGGTTATCGACAAGATTGGAAGCTTTCATTCGAAAAGGATACTGTTAGCAGAGGAGGCTGGTATGTAAATTTGTCCTACAAGAAGTCTTACACTATCACATTATCTGATTATCCATACCACTCTTAAAGGATCCTCTGTGATGTCTTCTTTATCATTTTTGGTTTGCGAAAAAATCGTAAAGATATGTGTCTACATTGAATCTATAATTAGAGGATAAGAAGTTCATTCCTTGCTTGCTGATAGAAGAAAGCTCTCTTTGGACATTTTTTATTTGTTATGTATGTGAGTTATGATCATAATTTTTCCTTTAATATTATGAACTTGACACTGTGGCAGGCAACAAGGAGGAATTATAGTTGCAGGTCCTGGTAAAGGTAACATCTCCTATATTCACAAGGTGTGTATGTCAAACCCTATACTCAATTTTATAGAATATATCTTGGAATATTCATGGTATACATGTTTAACATTTTTATGTTATCATTATGTCAAACGTGCTCACATGAGTAGGACAAAGAAGCAGGAGATGACCCAGAAATTGAAGATATCTTAAAAGCATGTTGCTCGTGA

Protein sequence

>MS.gene050170.t1

MDASGVALVLIGPGNIDQAKAFAEQTKFKGEIYADPAQSSYEALQFVSGVLTTFTPKAGLKIIELYMEGYRQDWKLSFEKDTVSRGGWQQGGIIVAGPGKGNISYIHKDKEAGDDPEIEDILKACCS