AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene70213

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene70213.t1 MTR_8g093790 94.545 55 3 0 1 55 2 56 4.62e-33 111
MS.gene70213.t1 MTR_4g094302 65.217 46 15 1 9 53 11 56 7.29e-14 62.0
MS.gene70213.t1 MTR_4g094302 53.571 56 25 1 9 63 11 66 9.88e-14 62.4
MS.gene70213.t1 MTR_3g096400 60.000 50 18 1 6 53 4 53 8.12e-13 60.1
MS.gene70213.t1 MTR_4g081870 53.704 54 24 1 1 53 1 54 7.66e-12 58.2
MS.gene70213.t1 MTR_8g099750 53.191 47 21 1 8 53 13 59 1.03e-11 57.4
MS.gene70213.t1 MTR_7g005280 51.852 54 25 1 7 59 13 66 1.66e-11 57.0
MS.gene70213.t1 MTR_3g098810 55.319 47 20 1 8 53 13 59 3.09e-11 55.5
MS.gene70213.t1 MTR_3g098810 55.319 47 20 1 8 53 13 59 3.69e-11 56.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene70213.t1 AT5G64530 64.583 48 16 1 7 53 1 48 1.83e-15 66.2
MS.gene70213.t1 AT5G64530 64.583 48 16 1 7 53 1 48 2.52e-15 66.2

Find 16 sgRNAs with CRISPR-Local

Find 46 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTACTTTCTAGCTGAATTT+TGG 0.160392 4.1:-8301918 None:intergenic
TGGTGAGACAAGTGAAGTTC+AGG 0.398752 4.1:-8301678 None:intergenic
CATGATCCTTGGGAAATATA+CGG 0.400748 4.1:+8301699 MS.gene70213:CDS
ACTTGTCTCACCATGATCCT+TGG 0.405810 4.1:+8301688 MS.gene70213:CDS
CTTGTCTCACCATGATCCTT+GGG 0.421667 4.1:+8301689 MS.gene70213:CDS
GGTATGATGCTAGGATGATA+TGG 0.434256 4.1:-8301657 None:intergenic
AGCAGCGTGAAGCTTCCTCC+TGG 0.455992 4.1:+8301570 MS.gene70213:CDS
ATGATATGGTAAAGAAGCCT+TGG 0.489756 4.1:-8301643 None:intergenic
CGTATATTTCCCAAGGATCA+TGG 0.491411 4.1:-8301698 None:intergenic
AGGACTAGTTCTTCATCCGT+TGG 0.520052 4.1:-8301606 None:intergenic
GCAGCGTGAAGCTTCCTCCT+GGG 0.544030 4.1:+8301571 MS.gene70213:CDS
TGAAGTTCAGGTATGATGCT+AGG 0.561302 4.1:-8301666 None:intergenic
CCTTGGAATAGAGAAAATGA+AGG 0.572117 4.1:-8301626 None:intergenic
GACATACCGTATATTTCCCA+AGG 0.621341 4.1:-8301705 None:intergenic
GTTGGATCAAAGTAAAACCC+AGG 0.688035 4.1:-8301588 None:intergenic
GGATCAAAGTAAAACCCAGG+AGG 0.734981 4.1:-8301585 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAAATTGGTATTATATATAT+AGG - chr4.1:8301853-8301872 None:intergenic 10.0%
!!! ATTTATTTTATTTTTTTACC+CGG - chr4.1:8302191-8302210 None:intergenic 10.0%
!!! TTTTCTTTTAAAATAGAATA+TGG + chr4.1:8302084-8302103 MS.gene70213:intron 10.0%
!! TATAATTAATCTATAAGTGA+TGG - chr4.1:8302147-8302166 None:intergenic 15.0%
!!! TCAAATTTTTATCTAAAATC+CGG + chr4.1:8302169-8302188 MS.gene70213:intron 15.0%
!! AGTGTTAAGACAAAATAAAT+TGG - chr4.1:8301868-8301887 None:intergenic 20.0%
!! ATTAGCAATAACATATGTTA+AGG - chr4.1:8302010-8302029 None:intergenic 20.0%
!! ATTCTAAATACCATCTAAAT+TGG + chr4.1:8301964-8301983 MS.gene70213:intron 20.0%
!! TTCTAAATACCATCTAAATT+GGG + chr4.1:8301965-8301984 MS.gene70213:intron 20.0%
!!! CAAATTTTTATCTAAAATCC+GGG + chr4.1:8302170-8302189 MS.gene70213:intron 20.0%
!!! CATAGCATATAATTGAATTT+TGG - chr4.1:8302059-8302078 None:intergenic 20.0%
!!! GATAGGTTTTACATAAATTT+TGG - chr4.1:8302237-8302256 None:intergenic 20.0%
! TCTATATATGCATGCATATA+TGG - chr4.1:8301818-8301837 None:intergenic 25.0%
!! ATTAATCTATAAGTGATGGA+TGG - chr4.1:8302143-8302162 None:intergenic 25.0%
AATCGTACTCTTTATAGTTG+TGG + chr4.1:8302262-8302281 MS.gene70213:intron 30.0%
ATATACATGCCTTTGTAAAC+AGG + chr4.1:8302310-8302329 MS.gene70213:intron 30.0%
ATTCAATGATCGATTAATCC+CGG + chr4.1:8302107-8302126 MS.gene70213:intron 30.0%
ATTGATCAAGTGACATATAC+TGG + chr4.1:8301780-8301799 MS.gene70213:intron 30.0%
! AAAGGCATGTATATTTCTTG+GGG - chr4.1:8302304-8302323 None:intergenic 30.0%
! ACAAAGGCATGTATATTTCT+TGG - chr4.1:8302306-8302325 None:intergenic 30.0%
! CAAAGGCATGTATATTTCTT+GGG - chr4.1:8302305-8302324 None:intergenic 30.0%
!! AAGAGTACGATTTTTCAGAT+AGG - chr4.1:8302254-8302273 None:intergenic 30.0%
!!! CTTACTTTCTAGCTGAATTT+TGG - chr4.1:8301921-8301940 None:intergenic 30.0%
AAGGCATGTATATTTCTTGG+GGG - chr4.1:8302303-8302322 None:intergenic 35.0%
ACGGTATGTCTTATAGTACT+AGG + chr4.1:8301718-8301737 MS.gene70213:intron 35.0%
ATGATATGGTAAAGAAGCCT+TGG - chr4.1:8301646-8301665 None:intergenic 35.0%
CATGATCCTTGGGAAATATA+CGG + chr4.1:8301699-8301718 MS.gene70213:CDS 35.0%
CCTTGGAATAGAGAAAATGA+AGG - chr4.1:8301629-8301648 None:intergenic 35.0%
! CCTTCATTTTCTCTATTCCA+AGG + chr4.1:8301626-8301645 MS.gene70213:CDS 35.0%
! TGGGTTTTACTTTGATCCAA+CGG + chr4.1:8301590-8301609 MS.gene70213:CDS 35.0%
!! TGAGAGTATCCCAATTTAGA+TGG - chr4.1:8301977-8301996 None:intergenic 35.0%
CGTATATTTCCCAAGGATCA+TGG - chr4.1:8301701-8301720 None:intergenic 40.0%
GACATACCGTATATTTCCCA+AGG - chr4.1:8301708-8301727 None:intergenic 40.0%
GGTATGATGCTAGGATGATA+TGG - chr4.1:8301660-8301679 None:intergenic 40.0%
GTTGGATCAAAGTAAAACCC+AGG - chr4.1:8301591-8301610 None:intergenic 40.0%
TGAAGTTCAGGTATGATGCT+AGG - chr4.1:8301669-8301688 None:intergenic 40.0%
!! TAAGTGATGGATGGTGAGAT+TGG - chr4.1:8302134-8302153 None:intergenic 40.0%
ACTTGTCTCACCATGATCCT+TGG + chr4.1:8301688-8301707 MS.gene70213:CDS 45.0%
CTTGTCTCACCATGATCCTT+GGG + chr4.1:8301689-8301708 MS.gene70213:CDS 45.0%
GGATCAAAGTAAAACCCAGG+AGG - chr4.1:8301588-8301607 None:intergenic 45.0%
TGGTGAGACAAGTGAAGTTC+AGG - chr4.1:8301681-8301700 None:intergenic 45.0%
!! AGGACTAGTTCTTCATCCGT+TGG - chr4.1:8301609-8301628 None:intergenic 45.0%
! ATGGATGGTGAGATTGGTCC+GGG - chr4.1:8302128-8302147 None:intergenic 50.0%
! GATGGATGGTGAGATTGGTC+CGG - chr4.1:8302129-8302148 None:intergenic 50.0%
AGCAGCGTGAAGCTTCCTCC+TGG + chr4.1:8301570-8301589 MS.gene70213:CDS 60.0%
GCAGCGTGAAGCTTCCTCCT+GGG + chr4.1:8301571-8301590 MS.gene70213:CDS 60.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 8301558 8302335 8301558 ID=MS.gene70213
chr4.1 mRNA 8301558 8302335 8301558 ID=MS.gene70213.t1;Parent=MS.gene70213
chr4.1 exon 8301558 8301720 8301558 ID=MS.gene70213.t1.exon1;Parent=MS.gene70213.t1
chr4.1 CDS 8301558 8301720 8301558 ID=cds.MS.gene70213.t1;Parent=MS.gene70213.t1
chr4.1 exon 8301908 8301935 8301908 ID=MS.gene70213.t1.exon2;Parent=MS.gene70213.t1
chr4.1 CDS 8301908 8301935 8301908 ID=cds.MS.gene70213.t1;Parent=MS.gene70213.t1
chr4.1 exon 8302332 8302335 8302332 ID=MS.gene70213.t1.exon3;Parent=MS.gene70213.t1
chr4.1 CDS 8302332 8302335 8302332 ID=cds.MS.gene70213.t1;Parent=MS.gene70213.t1
Gene Sequence

>MS.gene70213

ATGGGGAGTGAAAGCAGCGTGAAGCTTCCTCCTGGGTTTTACTTTGATCCAACGGATGAAGAACTAGTCCTTCATTTTCTCTATTCCAAGGCTTCTTTACCATATCATCCTAGCATCATACCTGAACTTCACTTGTCTCACCATGATCCTTGGGAAATATACGGTATGTCTTATAGTACTAGGTATATTATATATATTTCATATAATATTTTCAATTTCAATATTGATCAAGTGACATATACTGGATATTTAGTTGACCATATATGCATGCATATATAGATAAAACTTCATTCCTATATATATAATACCAATTTATTTTGTCTTAACACTTTGATTCTCATTAAAATTAGCTCTCATAGTCCAAAATTCAGCTAGAAAGTAAGTAATAAAAATCTAACAAAAAGATATTCTAAATACCATCTAAATTGGGATACTCTCAATCATTTCGACCTTAACATATGTTATTGCTAATAAGTTTGTGATATATGTAATCTTCAGCCAAAATTCAATTATATGCTATGAGATTTTTTCTTTTAAAATAGAATATGGATTCAATGATCGATTAATCCCGGACCAATCTCACCATCCATCACTTATAGATTAATTATATATCAAATTTTTATCTAAAATCCGGGTAAAAAAATAAAATAAATATACGTTATTTGTAGAAAATTATCCAAAATTTATGTAAAACCTATCTGAAAAATCGTACTCTTTATAGTTGTGGATGTGTATAATAACACCCCCAAGAAATATACATGCCTTTGTAAACAGGTAA
Protein sequence

>MS.gene70213.t1

MGSESSVKLPPGFYFDPTDEELVLHFLYSKASLPYHPSIIPELHLSHHDPWEIYALIVQNSARK