AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene066051

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene066051.t1 MTR_1g085590 87.387 222 23 4 5 221 1 222 2.26e-119 341
MS.gene066051.t1 MTR_1g063150 48.128 187 44 7 41 216 26 170 5.36e-38 131
MS.gene066051.t1 MTR_1g046810 37.037 243 78 8 45 222 84 316 6.40e-30 113
MS.gene066051.t1 MTR_1g052185 31.481 216 59 9 77 222 82 278 2.18e-13 67.8
MS.gene066051.t1 MTR_1g063140 38.194 144 34 7 96 216 1 112 4.10e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 33 sgRNAs with CRISPR-Local

Find 37 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCAAAATTCTTCACAACTTT+TGG 0.193061 1.2:-58539305 None:intergenic
AATGAAGGTGAAACTGAATT+AGG 0.203359 1.2:+58539281 MS.gene066051:CDS
AACTAAGATGAGGCACTAAT+TGG 0.271486 1.2:-58539366 None:intergenic
GAAGACAACAAAGAAGAAAA+AGG 0.297955 1.2:+58539205 MS.gene066051:CDS
TCTATCTCGCGTGGGTTATA+AGG 0.308553 1.2:+58539127 MS.gene066051:CDS
TGAATCACCGTGGTGCTAAA+AGG 0.329449 1.2:+58539153 MS.gene066051:CDS
CCTGCACGGCTGCTGTTTCT+CGG 0.336607 1.2:-58539036 None:intergenic
CGCCATATGATCTTCTTCTC+AGG 0.345803 1.2:-58538858 None:intergenic
GTGCAGGAGAAGAAGATATA+TGG 0.394772 1.2:+58539052 MS.gene066051:CDS
GAAAGAGAAAGAAGGGTATC+TGG 0.402663 1.2:-58538796 None:intergenic
ACTTCAAACAAAGCATTGAA+TGG 0.410463 1.2:+58538963 MS.gene066051:CDS
ATGAAGGTGAAACTGAATTA+GGG 0.412151 1.2:+58539282 MS.gene066051:CDS
GGCTGCTGTTTCTCGGAAGA+TGG 0.453754 1.2:-58539029 None:intergenic
CCGAGAAACAGCAGCCGTGC+AGG 0.471067 1.2:+58539036 MS.gene066051:CDS
TCCTCAACAACTAATGATGC+TGG 0.472142 1.2:+58538825 MS.gene066051:CDS
TCCAGCATCATTAGTTGTTG+AGG 0.475624 1.2:-58538826 None:intergenic
ACCCTGAGAAGAAGATCATA+TGG 0.501896 1.2:+58538856 MS.gene066051:CDS
GAAGAGAAGAAGATTAATGA+AGG 0.510676 1.2:+58539266 MS.gene066051:CDS
CTCATGTGATGTTTGCAACA+AGG 0.514548 1.2:+58538935 MS.gene066051:CDS
TCTATTGCGTCTATCTCGCG+TGG 0.518757 1.2:+58539118 MS.gene066051:CDS
ATGAGATGTCACGGTCAAAA+CGG 0.520374 1.2:+58538990 MS.gene066051:CDS
TCATCTTCAAACTCATCACT+TGG 0.524025 1.2:-58539341 None:intergenic
GAAGATGGTGCTGCAACTGT+TGG 0.540873 1.2:-58539014 None:intergenic
GCCATATGATCTTCTTCTCA+GGG 0.557187 1.2:-58538857 None:intergenic
GACTCAACGAAAGAGAAAGA+AGG 0.560928 1.2:-58538804 None:intergenic
CGGAAAGAATGATCATGAGA+AGG 0.580875 1.2:-58538735 None:intergenic
CAAGGTGTGCTACTAATAAG+TGG 0.587152 1.2:+58539230 MS.gene066051:CDS
ATATATCTTCTTCTCCTGCA+CGG 0.589712 1.2:-58539050 None:intergenic
ACTCAACGAAAGAGAAAGAA+GGG 0.591599 1.2:-58538803 None:intergenic
AATGGACATATGAGATGTCA+CGG 0.619984 1.2:+58538981 MS.gene066051:CDS
CTATTGCGTCTATCTCGCGT+GGG 0.626912 1.2:+58539119 MS.gene066051:CDS
GGTGTGCTACTAATAAGTGG+TGG 0.729409 1.2:+58539233 MS.gene066051:CDS
TATAAGGATGTGAATCACCG+TGG 0.764003 1.2:+58539143 MS.gene066051:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TCAAAATTCTTCACAACTTT+TGG - chr1.2:58539308-58539327 None:intergenic 25.0%
!!! TATTGGTTTTTGGTTTTTGA+CGG - chr1.2:58538758-58538777 None:intergenic 25.0%
!!! TTTTTGAAGAGACTGATTAT+TGG - chr1.2:58538775-58538794 None:intergenic 25.0%
AATGAAGGTGAAACTGAATT+AGG + chr1.2:58539281-58539300 MS.gene066051:CDS 30.0%
ACAAAGAAGAAAAAGGAACA+AGG + chr1.2:58539212-58539231 MS.gene066051:CDS 30.0%
ATGAAGGTGAAACTGAATTA+GGG + chr1.2:58539282-58539301 MS.gene066051:CDS 30.0%
GAAGACAACAAAGAAGAAAA+AGG + chr1.2:58539205-58539224 MS.gene066051:CDS 30.0%
GAAGAGAAGAAGATTAATGA+AGG + chr1.2:58539266-58539285 MS.gene066051:CDS 30.0%
!! ACTTCAAACAAAGCATTGAA+TGG + chr1.2:58538963-58538982 MS.gene066051:CDS 30.0%
!!! AGAGACTGATTATTGGTTTT+TGG - chr1.2:58538768-58538787 None:intergenic 30.0%
AATGGACATATGAGATGTCA+CGG + chr1.2:58538981-58539000 MS.gene066051:CDS 35.0%
ACTCAACGAAAGAGAAAGAA+GGG - chr1.2:58538806-58538825 None:intergenic 35.0%
ATATATCTTCTTCTCCTGCA+CGG - chr1.2:58539053-58539072 None:intergenic 35.0%
TCATCTTCAAACTCATCACT+TGG - chr1.2:58539344-58539363 None:intergenic 35.0%
ACCCTGAGAAGAAGATCATA+TGG + chr1.2:58538856-58538875 MS.gene066051:CDS 40.0%
ATGAGATGTCACGGTCAAAA+CGG + chr1.2:58538990-58539009 MS.gene066051:CDS 40.0%
CGGAAAGAATGATCATGAGA+AGG - chr1.2:58538738-58538757 None:intergenic 40.0%
CTCATGTGATGTTTGCAACA+AGG + chr1.2:58538935-58538954 MS.gene066051:CDS 40.0%
GACTCAACGAAAGAGAAAGA+AGG - chr1.2:58538807-58538826 None:intergenic 40.0%
GCCATATGATCTTCTTCTCA+GGG - chr1.2:58538860-58538879 None:intergenic 40.0%
GTGCAGGAGAAGAAGATATA+TGG + chr1.2:58539052-58539071 MS.gene066051:CDS 40.0%
TATAAGGATGTGAATCACCG+TGG + chr1.2:58539143-58539162 MS.gene066051:CDS 40.0%
TCCAGCATCATTAGTTGTTG+AGG - chr1.2:58538829-58538848 None:intergenic 40.0%
TCCTCAACAACTAATGATGC+TGG + chr1.2:58538825-58538844 MS.gene066051:CDS 40.0%
! CAAGGTGTGCTACTAATAAG+TGG + chr1.2:58539230-58539249 MS.gene066051:CDS 40.0%
!! GAAAGAGAAAGAAGGGTATC+TGG - chr1.2:58538799-58538818 None:intergenic 40.0%
CGCCATATGATCTTCTTCTC+AGG - chr1.2:58538861-58538880 None:intergenic 45.0%
! GCTTTTGCCTTTTAGCACCA+CGG - chr1.2:58539163-58539182 None:intergenic 45.0%
! GGTGTGCTACTAATAAGTGG+TGG + chr1.2:58539233-58539252 MS.gene066051:CDS 45.0%
! TCTATCTCGCGTGGGTTATA+AGG + chr1.2:58539127-58539146 MS.gene066051:CDS 45.0%
! TGAATCACCGTGGTGCTAAA+AGG + chr1.2:58539153-58539172 MS.gene066051:CDS 45.0%
CTATTGCGTCTATCTCGCGT+GGG + chr1.2:58539119-58539138 MS.gene066051:CDS 50.0%
TCTATTGCGTCTATCTCGCG+TGG + chr1.2:58539118-58539137 MS.gene066051:CDS 50.0%
!! GAAGATGGTGCTGCAACTGT+TGG - chr1.2:58539017-58539036 None:intergenic 50.0%
!! GGCTGCTGTTTCTCGGAAGA+TGG - chr1.2:58539032-58539051 None:intergenic 55.0%
!! CCTGCACGGCTGCTGTTTCT+CGG - chr1.2:58539039-58539058 None:intergenic 60.0%
CCGAGAAACAGCAGCCGTGC+AGG + chr1.2:58539036-58539055 MS.gene066051:CDS 65.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 58538705 58539373 58538705 ID=MS.gene066051
chr1.2 mRNA 58538705 58539373 58538705 ID=MS.gene066051.t1;Parent=MS.gene066051
chr1.2 exon 58538705 58539373 58538705 ID=MS.gene066051.t1.exon1;Parent=MS.gene066051.t1
chr1.2 CDS 58538705 58539373 58538705 ID=cds.MS.gene066051.t1;Parent=MS.gene066051.t1
Gene Sequence

>MS.gene066051

ATGAAGAAGAATATGTATTCTTCTTCATCTCCTTCTCATGATCATTCTTTCCGTCAAAAACCAAAAACCAATAATCAGTCTCTTCAAAAAACCAGATACCCTTCTTTCTCTTTCGTTGAGTCCTCAACAACTAATGATGCTGGAAAAGAGAACCCTGAGAAGAAGATCATATGGCGTTTTTCTTATTCTGTTGCTTATAATCATAATGATGTAGTAAAACAGAAGAAACACTCATGTGATGTTTGCAACAAGGTTTTTACTTCAAACAAAGCATTGAATGGACATATGAGATGTCACGGTCAAAACGGTCCAACAGTTGCAGCACCATCTTCCGAGAAACAGCAGCCGTGCAGGAGAAGAAGATATATGGATATTGACGACGACGAAGATGTTATTGAAACAGTTGCAGAAATTCTATTGCGTCTATCTCGCGTGGGTTATAAGGATGTGAATCACCGTGGTGCTAAAAGGCAAAAGCTTTCTTGCATTATGATCGATGAGAAGACAACAAAGAAGAAAAAGGAACAAGGTGTGCTACTAATAAGTGGTGGTCATGATATTGAAGAGAAGAAGATTAATGAAGGTGAAACTGAATTAGGGCCAAAAGTTGTGAAGAATTTTGATTTGAACGAGCTTCCAAGTGATGAGTTTGAAGATGAAACCAATTAG
Protein sequence

>MS.gene066051.t1

MKKNMYSSSSPSHDHSFRQKPKTNNQSLQKTRYPSFSFVESSTTNDAGKENPEKKIIWRFSYSVAYNHNDVVKQKKHSCDVCNKVFTSNKALNGHMRCHGQNGPTVAAPSSEKQQPCRRRRYMDIDDDEDVIETVAEILLRLSRVGYKDVNHRGAKRQKLSCIMIDEKTTKKKKEQGVLLISGGHDIEEKKINEGETELGPKVVKNFDLNELPSDEFEDETN