AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene053574


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene053574.t1 MTR_4g093560 98.864 176 2 0 1 176 1 176 1.58e-131 365
MS.gene053574.t1 MTR_2g009600 67.630 173 55 1 2 173 3 175 2.94e-86 252
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene053574.t1 AT2G14110 66.860 172 56 1 5 175 4 175 2.87e-86 251
MS.gene053574.t1 AT2G14110 68.421 133 42 0 5 137 4 136 4.96e-69 206

Find 35 sgRNAs with CRISPR-Local

Find 53 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCAATAACAGGTTTCAAATT+TGG 0.132575 4.4:+21344925 MS.gene053574:intron
TTTGGGAGTTACAAGTATTT+TGG 0.197480 4.4:+21344943 MS.gene053574:CDS
CAATAACAGGTTTCAAATTT+GGG 0.308384 4.4:+21344926 MS.gene053574:intron
GTTAACAATGGCTTAAATCT+AGG 0.314102 4.4:+21344965 MS.gene053574:CDS
TCGATTTAGATTATACTCTT+TGG 0.338666 4.4:+21344265 MS.gene053574:CDS
CAGAAAATTCATTCAAAGAC+CGG 0.400088 4.4:+21344741 MS.gene053574:CDS
CACCTCAATGTTTGTCGCCC+AGG 0.413707 4.4:+21344551 MS.gene053574:CDS
GAAAGAAGAGATGGAGGAGG+TGG 0.415362 4.4:+21344176 None:intergenic
ATACTCTTTGGCCTTTCTAC+TGG 0.426381 4.4:+21344277 MS.gene053574:CDS
AGAGATGGAGGAGGTGGAGA+AGG 0.429450 4.4:+21344182 None:intergenic
GCTGAGGCAGTGCAAATGAT+AGG 0.438625 4.4:+21344210 MS.gene053574:CDS
CCTCAAAGAACAAGCAGAAA+AGG 0.469406 4.4:+21345032 MS.gene053574:CDS
TGATAACAATAACATGAAAC+CGG 0.472254 4.4:+21344797 MS.gene053574:CDS
GAGTGCACTCAAGATGCCTC+TGG 0.487612 4.4:-21344445 None:intergenic
CAAAGAAGGTGTGTCGTGCT+TGG 0.497441 4.4:-21344412 None:intergenic
TATGTGTGGAGTTGGTGATT+TGG 0.498178 4.4:-21344499 None:intergenic
AGAGAAAGAAGAGATGGAGG+AGG 0.524195 4.4:+21344173 None:intergenic
CTCAAGATGCCTCTGGAATG+TGG 0.524198 4.4:-21344438 None:intergenic
TTGAGTGCACTCAAAGATGA+AGG 0.526991 4.4:+21344456 MS.gene053574:CDS
AAATCGAACACTACGAGCCT+TGG 0.527042 4.4:-21344249 None:intergenic
AATCTAGGAGTATTTAGAGA+AGG 0.528974 4.4:+21344980 MS.gene053574:CDS
GTACAAATTTACCAGTAGAA+AGG 0.530754 4.4:-21344288 None:intergenic
GGAGGAGGTGGAGAAGGTGA+AGG 0.537062 4.4:+21344188 MS.gene053574:CDS
ATCTAGGAGTATTTAGAGAA+GGG 0.541922 4.4:+21344981 MS.gene053574:CDS
GGTGGAGAAGGTGAAGGCTG+AGG 0.552861 4.4:+21344194 MS.gene053574:CDS
CTGGAATGTGGAAACAAAGA+AGG 0.568363 4.4:-21344426 None:intergenic
GTTGTTGCTATGTGTGGAGT+TGG 0.571433 4.4:-21344507 None:intergenic
CATAGAGTTGTAGGGGACAC+CGG 0.577518 4.4:-21344760 None:intergenic
AGTTGGTGATTTGGAAGCAA+TGG 0.603835 4.4:-21344490 None:intergenic
AGATACGTTGTTGCTATGTG+TGG 0.622048 4.4:-21344513 None:intergenic
AACCTGGGCGACAAACATTG+AGG 0.630045 4.4:-21344553 None:intergenic
TCTTTGTTTCCACATTCCAG+AGG 0.646314 4.4:+21344429 MS.gene053574:CDS
AAAAGAGCATAGAGTTGTAG+GGG 0.649290 4.4:-21344767 None:intergenic
AAGGTGTGTCGTGCTTGGAG+CGG 0.652306 4.4:-21344407 None:intergenic
GAATGTTTCAAGTACTACCA+AGG 0.677669 4.4:+21344232 MS.gene053574:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAAAGAGAAATTAAATTT+GGG - chr4.4:21344673-21344692 None:intergenic 10.0%
!! TAAAAAAGAGAAATTAAATT+TGG - chr4.4:21344674-21344693 None:intergenic 10.0%
!! AACAAAATAAAATGATATAC+CGG - chr4.4:21344819-21344838 None:intergenic 15.0%
!!! ATTTCTCTTTTTTATTGTTT+AGG + chr4.4:21344680-21344699 MS.gene053574:intron 15.0%
! AAATAAGCGCAATAAAAAAG+CGG - chr4.4:21344614-21344633 None:intergenic 25.0%
! CAATAACAGGTTTCAAATTT+GGG + chr4.4:21344926-21344945 MS.gene053574:intron 25.0%
! TCGATTTAGATTATACTCTT+TGG + chr4.4:21344265-21344284 MS.gene053574:CDS 25.0%
! TGATAACAATAACATGAAAC+CGG + chr4.4:21344797-21344816 MS.gene053574:CDS 25.0%
!! AAATTCTCTTATTTGTTTGG+AGG + chr4.4:21344859-21344878 MS.gene053574:intron 25.0%
!! CTCAAATTCTCTTATTTGTT+TGG + chr4.4:21344856-21344875 MS.gene053574:intron 25.0%
!!! ACAAGTATTTTGGTTAACAA+TGG + chr4.4:21344953-21344972 MS.gene053574:CDS 25.0%
CAGAAAATTCATTCAAAGAC+CGG + chr4.4:21344741-21344760 MS.gene053574:CDS 30.0%
CCAATAACAGGTTTCAAATT+TGG + chr4.4:21344925-21344944 MS.gene053574:intron 30.0%
GTACAAATTTACCAGTAGAA+AGG - chr4.4:21344291-21344310 None:intergenic 30.0%
GTTAACAATGGCTTAAATCT+AGG + chr4.4:21344965-21344984 MS.gene053574:CDS 30.0%
! AAAAAGAGCATAGAGTTGTA+GGG - chr4.4:21344771-21344790 None:intergenic 30.0%
! CCAAATTTGAAACCTGTTAT+TGG - chr4.4:21344928-21344947 None:intergenic 30.0%
! TAGTGAGTACTCTAGAAAAT+AGG - chr4.4:21344335-21344354 None:intergenic 30.0%
! TTTGGGAGTTACAAGTATTT+TGG + chr4.4:21344943-21344962 MS.gene053574:CDS 30.0%
!! AATCTAGGAGTATTTAGAGA+AGG + chr4.4:21344980-21344999 MS.gene053574:CDS 30.0%
!! ATCTAGGAGTATTTAGAGAA+GGG + chr4.4:21344981-21345000 MS.gene053574:CDS 30.0%
! AAAAGAGCATAGAGTTGTAG+GGG - chr4.4:21344770-21344789 None:intergenic 35.0%
! CACAAGATTTTCGCAAAACT+GGG + chr4.4:21345006-21345025 MS.gene053574:CDS 35.0%
! GAAAAAGAGCATAGAGTTGT+AGG - chr4.4:21344772-21344791 None:intergenic 35.0%
! GAATGTTTCAAGTACTACCA+AGG + chr4.4:21344232-21344251 MS.gene053574:CDS 35.0%
! TCACAAGATTTTCGCAAAAC+TGG + chr4.4:21345005-21345024 MS.gene053574:CDS 35.0%
!! TGATTTGTTGTGCCAATAAC+AGG + chr4.4:21344913-21344932 MS.gene053574:intron 35.0%
ACTGAGGAACAAACAAACCT+GGG - chr4.4:21344571-21344590 None:intergenic 40.0%
AGATACGTTGTTGCTATGTG+TGG - chr4.4:21344516-21344535 None:intergenic 40.0%
CCTCAAAGAACAAGCAGAAA+AGG + chr4.4:21345032-21345051 MS.gene053574:CDS 40.0%
CTGGAATGTGGAAACAAAGA+AGG - chr4.4:21344429-21344448 None:intergenic 40.0%
TTGAGTGCACTCAAAGATGA+AGG + chr4.4:21344456-21344475 MS.gene053574:CDS 40.0%
! ATACTCTTTGGCCTTTCTAC+TGG + chr4.4:21344277-21344296 MS.gene053574:CDS 40.0%
! CCTTTTCTGCTTGTTCTTTG+AGG - chr4.4:21345035-21345054 None:intergenic 40.0%
! TCTTTGTTTCCACATTCCAG+AGG + chr4.4:21344429-21344448 MS.gene053574:CDS 40.0%
!! AGTTGGTGATTTGGAAGCAA+TGG - chr4.4:21344493-21344512 None:intergenic 40.0%
!! TATGTGTGGAGTTGGTGATT+TGG - chr4.4:21344502-21344521 None:intergenic 40.0%
AAATCGAACACTACGAGCCT+TGG - chr4.4:21344252-21344271 None:intergenic 45.0%
AAGTGTTCGTCTTTCCACTG+AGG - chr4.4:21344587-21344606 None:intergenic 45.0%
CACTGAGGAACAAACAAACC+TGG - chr4.4:21344572-21344591 None:intergenic 45.0%
GTTGTTGCTATGTGTGGAGT+TGG - chr4.4:21344510-21344529 None:intergenic 45.0%
! CAGGTTTGTTTGTTCCTCAG+TGG + chr4.4:21344570-21344589 MS.gene053574:intron 45.0%
!!! TTATATGTATATTTATTTTA+CGG + chr4.4:21344632-21344651 MS.gene053574:intron 5.0%
AACCTGGGCGACAAACATTG+AGG - chr4.4:21344556-21344575 None:intergenic 50.0%
CATAGAGTTGTAGGGGACAC+CGG - chr4.4:21344763-21344782 None:intergenic 50.0%
GCTGAGGCAGTGCAAATGAT+AGG + chr4.4:21344210-21344229 MS.gene053574:CDS 50.0%
! CAAAGAAGGTGTGTCGTGCT+TGG - chr4.4:21344415-21344434 None:intergenic 50.0%
!! CTCAAGATGCCTCTGGAATG+TGG - chr4.4:21344441-21344460 None:intergenic 50.0%
AAGGTGTGTCGTGCTTGGAG+CGG - chr4.4:21344410-21344429 None:intergenic 55.0%
CACCTCAATGTTTGTCGCCC+AGG + chr4.4:21344551-21344570 MS.gene053574:CDS 55.0%
GAGTGCACTCAAGATGCCTC+TGG - chr4.4:21344448-21344467 None:intergenic 55.0%
GGAGGAGGTGGAGAAGGTGA+AGG + chr4.4:21344188-21344207 MS.gene053574:CDS 60.0%
GGTGGAGAAGGTGAAGGCTG+AGG + chr4.4:21344194-21344213 MS.gene053574:CDS 60.0%


Chromosome Type Strat End Strand Name
chr4.4 gene 21344186 21345063 21344186 ID=MS.gene053574
chr4.4 mRNA 21344186 21345063 21344186 ID=MS.gene053574.t1;Parent=MS.gene053574
chr4.4 exon 21344186 21344298 21344186 ID=MS.gene053574.t1.exon1;Parent=MS.gene053574.t1
chr4.4 CDS 21344186 21344298 21344186 ID=cds.MS.gene053574.t1;Parent=MS.gene053574.t1
chr4.4 exon 21344401 21344572 21344401 ID=MS.gene053574.t1.exon2;Parent=MS.gene053574.t1
chr4.4 CDS 21344401 21344572 21344401 ID=cds.MS.gene053574.t1;Parent=MS.gene053574.t1
chr4.4 exon 21344702 21344818 21344702 ID=MS.gene053574.t1.exon3;Parent=MS.gene053574.t1
chr4.4 CDS 21344702 21344818 21344702 ID=cds.MS.gene053574.t1;Parent=MS.gene053574.t1
chr4.4 exon 21344935 21345063 21344935 ID=MS.gene053574.t1.exon4;Parent=MS.gene053574.t1
chr4.4 CDS 21344935 21345063 21344935 ID=cds.MS.gene053574.t1;Parent=MS.gene053574.t1
Gene Sequence

>MS.gene053574

ATGGAGGAGGTGGAGAAGGTGAAGGCTGAGGCAGTGCAAATGATAGGAATGTTTCAAGTACTACCAAGGCTCGTAGTGTTCGATTTAGATTATACTCTTTGGCCTTTCTACTGGTAAATTTGTACATGATACATCTTTTCATCTTTCCTATTTTCTAGAGTACTCACTAAATATTCTTTCTTATTTTACTACACAAAATGAATCTCAAATTTCAGTGAGTGCCGCTCCAAGCACGACACACCTTCTTTGTTTCCACATTCCAGAGGCATCTTGAGTGCACTCAAAGATGAAGGAATTGATGCTGCCATTGCTTCCAAATCACCAACTCCACACATAGCAACAACGTATCTTGACAAACTCAAAATCACCTCAATGTTTGTCGCCCAGGTTTGTTTGTTCCTCAGTGGAAAGACGAACACTTCTGTCCGCTTTTTTATTGCGCTTATTTATATGTATATTTATTTTACGGCACGTTCTTGTTAGACCCAAATTTAATTTCTCTTTTTTATTGTTTAGGAAATATTTTACAGCTCGACACACAAAACAGAACATTTTCAGAAAATTCATTCAAAGACCGGTGTCCCCTACAACTCTATGCTCTTTTTCGACGATGATAACAATAACATGAAACCGGTATATCATTTTATTTTGTTTTTTAATTAATTAAGTTCTCAAATTCTCTTATTTGTTTGGAGGAGTGATTATCAATTTGTCATATCATGTAACATGATTTGTTGTGCCAATAACAGGTTTCAAATTTGGGAGTTACAAGTATTTTGGTTAACAATGGCTTAAATCTAGGAGTATTTAGAGAAGGGCTCACAAGATTTTCGCAAAACTGGGATGCCTCAAAGAACAAGCAGAAAAGGCGCAAGTAA

Protein sequence

>MS.gene053574.t1

MEEVEKVKAEAVQMIGMFQVLPRLVVFDLDYTLWPFYCECRSKHDTPSLFPHSRGILSALKDEGIDAAIASKSPTPHIATTYLDKLKITSMFVAQEIFYSSTHKTEHFQKIHSKTGVPYNSMLFFDDDNNNMKPVSNLGVTSILVNNGLNLGVFREGLTRFSQNWDASKNKQKRRK