AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene70433

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene70433.t1 MTR_3g083080 94.702 151 8 0 1 151 55 205 1.01e-105 300
MS.gene70433.t1 MTR_3g083050 61.438 153 56 2 1 152 57 207 2.84e-61 188
MS.gene70433.t1 MTR_3g083030 61.438 153 56 2 1 152 80 230 3.54e-61 188
MS.gene70433.t1 MTR_3g083150 41.772 158 84 5 2 152 56 212 2.54e-23 91.3
MS.gene70433.t1 MTR_3g082420 34.375 160 92 5 1 151 66 221 1.34e-22 89.7
MS.gene70433.t1 MTR_3g082340 34.375 160 92 5 1 151 67 222 2.09e-22 89.0
MS.gene70433.t1 MTR_3g083100 46.032 126 52 4 43 152 49 174 3.25e-19 79.7
MS.gene70433.t1 MTR_3g086030 52.703 74 35 0 3 76 30 103 5.05e-19 78.6
MS.gene70433.t1 MTR_3g080680 37.342 158 86 6 2 151 46 198 1.10e-18 79.0
MS.gene70433.t1 MTR_8g461300 36.145 166 87 9 1 151 37 198 3.53e-15 69.7
MS.gene70433.t1 MTR_4g055800 32.867 143 76 5 1 135 143 273 5.67e-15 70.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 28 sgRNAs with CRISPR-Local

Find 42 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGCCCACACATAAACATAAA+AGG 0.266595 3.1:+66258060 None:intergenic
GCGATTTACGCATAAGAATA+AGG 0.370768 3.1:-66258040 MS.gene70433:CDS
GAAAATTATAGCAGGGTTGT+TGG 0.386622 3.1:+66257522 None:intergenic
TGCAGAGGGGAGTGAGTCTA+AGG 0.391841 3.1:+66257767 None:intergenic
TCTTGTTCCGTACTTGTGCC+TGG 0.436222 3.1:+66257500 None:intergenic
AGATCTTCTGTTAAGCTGAT+AGG 0.442837 3.1:+66257793 None:intergenic
AAGTACGGAACAAGAGGCTT+GGG 0.481160 3.1:-66257492 MS.gene70433:CDS
GGCTCAGATTCAACAAGATA+AGG 0.491800 3.1:-66258019 MS.gene70433:CDS
ATAAGGAGATTAGAATCGCC+AGG 0.511258 3.1:-66258002 MS.gene70433:CDS
CAAGTACGGAACAAGAGGCT+TGG 0.516339 3.1:-66257493 MS.gene70433:CDS
TGTGCCTGGAAAATTATAGC+AGG 0.519172 3.1:+66257514 None:intergenic
CAAGTACAATGCTGAGAACC+AGG 0.527031 3.1:-66257731 MS.gene70433:intron
ATACGTATGACCAGGTCTCC+AGG 0.532099 3.1:+66257582 None:intergenic
GTGAAGACAACCTGGAGACC+TGG 0.543016 3.1:-66257592 MS.gene70433:CDS
TTCTTGTTTCTGTGCTTGAA+AGG 0.546292 3.1:+66257552 None:intergenic
CTGACATTGTGAAGACAACC+TGG 0.547939 3.1:-66257600 MS.gene70433:CDS
ATTATAGCAGGGTTGTTGGA+AGG 0.555946 3.1:+66257526 None:intergenic
ATGGCACACGACTTGACCAC+AGG 0.557195 3.1:+66257466 None:intergenic
GTCTAACGCAAACTTGCAGA+GGG 0.574230 3.1:+66257753 None:intergenic
GGAGGAGTGATGGCATCGAA+AGG 0.589477 3.1:+66257847 None:intergenic
AGGCACAAGTACGGAACAAG+AGG 0.609707 3.1:-66257498 MS.gene70433:CDS
CAAGAGGCTTGGGCCACCTG+TGG 0.623165 3.1:-66257482 MS.gene70433:CDS
TGTCTAACGCAAACTTGCAG+AGG 0.623827 3.1:+66257752 None:intergenic
GTGCCTGGAAAATTATAGCA+GGG 0.631348 3.1:+66257515 None:intergenic
GCACACGACTTGACCACAGG+TGG 0.646887 3.1:+66257469 None:intergenic
TAAGGAGATTAGAATCGCCA+GGG 0.663137 3.1:-66258001 MS.gene70433:CDS
GTAATGTAATACGTATGACC+AGG 0.669250 3.1:+66257574 None:intergenic
TCTAACGCAAACTTGCAGAG+GGG 0.780492 3.1:+66257754 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAATGTAGATTTGCATTTTT+TGG + chr3.1:66257714-66257733 None:intergenic 20.0%
! TTATTGTAATTTAAGGAACC+TGG + chr3.1:66257827-66257846 None:intergenic 25.0%
!! ACTAATTTTTGTCCTGATTT+AGG - chr3.1:66257896-66257915 MS.gene70433:intron 25.0%
!! CTAATTTTTGTCCTGATTTA+GGG - chr3.1:66257897-66257916 MS.gene70433:intron 25.0%
!! TAGATAGATGTTTTACAGAT+AGG + chr3.1:66257587-66257606 None:intergenic 25.0%
! AAGCCTTTTATGTTTATGTG+TGG - chr3.1:66257474-66257493 MS.gene70433:CDS 30.0%
! AGCCTTTTATGTTTATGTGT+GGG - chr3.1:66257475-66257494 MS.gene70433:CDS 30.0%
!!! TGTAGATTTGCATTTTTTGG+AGG + chr3.1:66257711-66257730 None:intergenic 30.0%
AGATCTTCTGTTAAGCTGAT+AGG + chr3.1:66257747-66257766 None:intergenic 35.0%
CAAAATTTGCACCCTAAATC+AGG + chr3.1:66257911-66257930 None:intergenic 35.0%
GAAAATTATAGCAGGGTTGT+TGG + chr3.1:66258018-66258037 None:intergenic 35.0%
GCGATTTACGCATAAGAATA+AGG - chr3.1:66257497-66257516 MS.gene70433:CDS 35.0%
GTAATGTAATACGTATGACC+AGG + chr3.1:66257966-66257985 None:intergenic 35.0%
! TAATTTTCCAGGCACAAGTA+CGG - chr3.1:66258030-66258049 MS.gene70433:CDS 35.0%
!! TTCTTGTTTCTGTGCTTGAA+AGG + chr3.1:66257988-66258007 None:intergenic 35.0%
ATAAGGAGATTAGAATCGCC+AGG - chr3.1:66257535-66257554 MS.gene70433:CDS 40.0%
ATTATAGCAGGGTTGTTGGA+AGG + chr3.1:66258014-66258033 None:intergenic 40.0%
CGCCCACACATAAACATAAA+AGG + chr3.1:66257480-66257499 None:intergenic 40.0%
GGCTCAGATTCAACAAGATA+AGG - chr3.1:66257518-66257537 MS.gene70433:CDS 40.0%
GTGCCTGGAAAATTATAGCA+GGG + chr3.1:66258025-66258044 None:intergenic 40.0%
TAAGGAGATTAGAATCGCCA+GGG - chr3.1:66257536-66257555 MS.gene70433:CDS 40.0%
TGTGCCTGGAAAATTATAGC+AGG + chr3.1:66258026-66258045 None:intergenic 40.0%
! CAACCCTGCTATAATTTTCC+AGG - chr3.1:66258019-66258038 MS.gene70433:CDS 40.0%
!!! TGCATTTTTTGGAGGAGTGA+TGG + chr3.1:66257703-66257722 None:intergenic 40.0%
AAGTACGGAACAAGAGGCTT+GGG - chr3.1:66258045-66258064 MS.gene70433:CDS 45.0%
CAAGTACAATGCTGAGAACC+AGG - chr3.1:66257806-66257825 MS.gene70433:CDS 45.0%
CTGACATTGTGAAGACAACC+TGG - chr3.1:66257937-66257956 MS.gene70433:intron 45.0%
GTCTAACGCAAACTTGCAGA+GGG + chr3.1:66257787-66257806 None:intergenic 45.0%
TCTAACGCAAACTTGCAGAG+GGG + chr3.1:66257786-66257805 None:intergenic 45.0%
TGTCTAACGCAAACTTGCAG+AGG + chr3.1:66257788-66257807 None:intergenic 45.0%
! GAGCTTTTTATGCTTAGCCC+TGG + chr3.1:66257556-66257575 None:intergenic 45.0%
!! ATAATAATTATTGTAATTTA+AGG + chr3.1:66257834-66257853 None:intergenic 5.0%
AGGCACAAGTACGGAACAAG+AGG - chr3.1:66258039-66258058 MS.gene70433:CDS 50.0%
ATACGTATGACCAGGTCTCC+AGG + chr3.1:66257958-66257977 None:intergenic 50.0%
CAAGTACGGAACAAGAGGCT+TGG - chr3.1:66258044-66258063 MS.gene70433:CDS 50.0%
TCTTGTTCCGTACTTGTGCC+TGG + chr3.1:66258040-66258059 None:intergenic 50.0%
ATGGCACACGACTTGACCAC+AGG + chr3.1:66258074-66258093 None:intergenic 55.0%
GTGAAGACAACCTGGAGACC+TGG - chr3.1:66257945-66257964 MS.gene70433:intron 55.0%
TGCAGAGGGGAGTGAGTCTA+AGG + chr3.1:66257773-66257792 None:intergenic 55.0%
! GGAGGAGTGATGGCATCGAA+AGG + chr3.1:66257693-66257712 None:intergenic 55.0%
GCACACGACTTGACCACAGG+TGG + chr3.1:66258071-66258090 None:intergenic 60.0%
CAAGAGGCTTGGGCCACCTG+TGG - chr3.1:66258055-66258074 MS.gene70433:CDS 65.0%


Chromosome Type Strat End Strand Name
chr3.1 gene 66257456 66258103 66257456 ID=MS.gene70433
chr3.1 mRNA 66257456 66258103 66257456 ID=MS.gene70433.t1;Parent=MS.gene70433
chr3.1 exon 66257969 66258103 66257969 ID=MS.gene70433.t1.exon1;Parent=MS.gene70433.t1
chr3.1 CDS 66257969 66258103 66257969 ID=cds.MS.gene70433.t1;Parent=MS.gene70433.t1
chr3.1 exon 66257732 66257869 66257732 ID=MS.gene70433.t1.exon2;Parent=MS.gene70433.t1
chr3.1 CDS 66257732 66257869 66257732 ID=cds.MS.gene70433.t1;Parent=MS.gene70433.t1
chr3.1 exon 66257456 66257641 66257456 ID=MS.gene70433.t1.exon3;Parent=MS.gene70433.t1
chr3.1 CDS 66257456 66257641 66257456 ID=cds.MS.gene70433.t1;Parent=MS.gene70433.t1
Gene Sequence

>MS.gene70433

ATGTATGACGATGACATTAAGCCTTTTATGTTTATGTGTGGGCGATTTACGCATAAGAATAAGGCTCAGATTCAACAAGATAAGGAGATTAGAATCGCCAGGGCTAAGCATAAAAAGCTCTCTCGCAACCTATCTGTAAAACATCTATCTATTTCAATTTCATCTTGTTGTGTTTCACTTATAATAATAATAATAATCTAATTTCTTCATTTTGATTTATTCTGAACAACACAGCCTTTCGATGCCATCACTCCTCCAAAAAATGCAAATCTACATTTCAGTGCTATACCTATCAGCTTAACAGAAGATCTTCGCCTTAGACTCACTCCCCTCTGCAAGTTTGCGTTAGACAAGTACAATGCTGAGAACCAGGTTCCTTAAATTACAATAATTATTATATTTATATATGCATATACGTTTGTTTGTTTATTCATTATTAAACTAATTTTTGTCCTGATTTAGGGTGCAAATTTTGTGTTTGCTGACATTGTGAAGACAACCTGGAGACCTGGTCATACGTATTACATTACCTTTCAAGCACAGAAACAAGAAGATCCTTCCAACAACCCTGCTATAATTTTCCAGGCACAAGTACGGAACAAGAGGCTTGGGCCACCTGTGGTCAAGTCGTGTGCCATCAAAACCTAA
Protein sequence

>MS.gene70433.t1

MYDDDIKPFMFMCGRFTHKNKAQIQQDKEIRIARAKHKKLSRNLSPFDAITPPKNANLHFSAIPISLTEDLRLRLTPLCKFALDKYNAENQGANFVFADIVKTTWRPGHTYYITFQAQKQEDPSNNPAIIFQAQVRNKRLGPPVVKSCAIKT