AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene063149


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene063149.t1 MTR_3g117050 91.698 265 20 2 1 265 1 263 4.01e-172 476
MS.gene063149.t1 MTR_4g070660 41.445 263 98 13 3 255 5 221 5.09e-32 117
MS.gene063149.t1 MTR_4g070640 38.735 253 96 10 10 255 9 209 4.14e-26 102
MS.gene063149.t1 MTR_4g070630 36.111 216 76 8 49 254 2 165 9.92e-25 97.4
MS.gene063149.t1 MTR_8g077085 30.380 237 139 9 22 256 12 224 1.35e-19 85.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene063149.t1 AT5G66440 27.372 274 147 7 1 257 1 239 2.74e-21 90.1
MS.gene063149.t1 AT4G34560 31.527 203 92 8 64 264 63 220 6.62e-15 72.4
MS.gene063149.t1 AT2G21560 27.007 274 171 11 1 255 1 264 1.29e-12 66.6

Find 30 sgRNAs with CRISPR-Local

Find 40 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACAGATTAGCTAGGGATAAA+TGG 0.269852 3.4:-99534153 None:intergenic
AATGAAGTTGGAAGAGAAAC+AGG 0.271425 3.4:+99533848 MS.gene063149:CDS
TCGTTGCTCATTCCATCTTC+AGG 0.330037 3.4:-99534062 None:intergenic
CGAGGTTTCGCGGTTGGTCC+TGG 0.365762 3.4:+99533549 MS.gene063149:CDS
GAAAGCTTGCAAATTTGTTT+CGG 0.373892 3.4:+99533436 MS.gene063149:CDS
GTGATAACGATAAGAGTAAG+AGG 0.395005 3.4:+99533994 MS.gene063149:CDS
ATCACACTCATTGCTCAATC+TGG 0.416349 3.4:+99533603 MS.gene063149:CDS
TGGAAGTGAAGGGATATAGA+AGG 0.441385 3.4:+99533892 MS.gene063149:CDS
AAAGTTGAGAACAACGTAAA+GGG 0.443322 3.4:+99533753 MS.gene063149:CDS
TCAAAGCCAACGGTAGTTGT+TGG 0.443920 3.4:-99533506 None:intergenic
AGATGATAATAGAATGAAGT+TGG 0.450200 3.4:+99533836 MS.gene063149:CDS
AGTTTATTATATCCTGAAGA+TGG 0.470634 3.4:+99534050 MS.gene063149:CDS
AGAGATGGGTTTGGAAGTGA+AGG 0.496963 3.4:+99533881 MS.gene063149:CDS
GGGATATAGAAGGTGTCAAT+CGG 0.514951 3.4:+99533902 MS.gene063149:CDS
TTCATTCCAACAACTACCGT+TGG 0.531596 3.4:+99533500 MS.gene063149:CDS
AAAAGTTGAGAACAACGTAA+AGG 0.543362 3.4:+99533752 MS.gene063149:CDS
TAGAATAAACGATGGATGCA+TGG 0.556637 3.4:+99533779 MS.gene063149:CDS
CTCGAGTTCTTCAAAGCCAA+CGG 0.560967 3.4:-99533516 None:intergenic
ATCGGAAATTGAGTTGGTGA+GGG 0.576160 3.4:+99533920 MS.gene063149:CDS
AACATGTATCAGAAAATCCA+AGG 0.585434 3.4:+99533705 MS.gene063149:CDS
AGGATCAAAGAGTGCTGCAA+AGG 0.598659 3.4:+99533964 MS.gene063149:CDS
AATCGGAAATTGAGTTGGTG+AGG 0.606720 3.4:+99533919 MS.gene063149:CDS
GTGTCAATCGGAAATTGAGT+TGG 0.619603 3.4:+99533914 MS.gene063149:CDS
TCTTGCAATAAATGCCTCCA+CGG 0.627372 3.4:-99534099 None:intergenic
TGTGAATAGTGATGATGTGA+AGG 0.638060 3.4:+99533944 MS.gene063149:CDS
GAGATGGGTTTGGAAGTGAA+GGG 0.651077 3.4:+99533882 MS.gene063149:CDS
TCGGAAATTGAGTTGGTGAG+GGG 0.662410 3.4:+99533921 MS.gene063149:CDS
CGAATTTCGTCGCACCGTGG+AGG 0.663215 3.4:+99534085 MS.gene063149:CDS
AAGGGTCGTAGAATAAACGA+TGG 0.676337 3.4:+99533771 MS.gene063149:CDS
CGACGAATTTCGTCGCACCG+TGG 0.721139 3.4:+99534082 MS.gene063149:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AGATGATAATAGAATGAAGT+TGG + chr3.4:99533836-99533855 MS.gene063149:CDS 25.0%
! AGTTTATTATATCCTGAAGA+TGG + chr3.4:99534050-99534069 MS.gene063149:CDS 25.0%
!!! TTGTGTTGATTTTGATTTCA+AGG + chr3.4:99533475-99533494 MS.gene063149:CDS 25.0%
AAAAGTTGAGAACAACGTAA+AGG + chr3.4:99533752-99533771 MS.gene063149:CDS 30.0%
AAAGTTGAGAACAACGTAAA+GGG + chr3.4:99533753-99533772 MS.gene063149:CDS 30.0%
AACATGTATCAGAAAATCCA+AGG + chr3.4:99533705-99533724 MS.gene063149:CDS 30.0%
! GAAAGCTTGCAAATTTGTTT+CGG + chr3.4:99533436-99533455 MS.gene063149:CDS 30.0%
!! ACGATGTTTTTGAACTTTGT+TGG - chr3.4:99533409-99533428 None:intergenic 30.0%
!!! GTTTTTTCTGATCAAAACCT+TGG - chr3.4:99533725-99533744 None:intergenic 30.0%
AATGAAGTTGGAAGAGAAAC+AGG + chr3.4:99533848-99533867 MS.gene063149:CDS 35.0%
ACAGGAGATAAAAACAGAGA+TGG + chr3.4:99533866-99533885 MS.gene063149:CDS 35.0%
CAGGAGATAAAAACAGAGAT+GGG + chr3.4:99533867-99533886 MS.gene063149:CDS 35.0%
CCAACAAGAAAAACAAAACC+AGG - chr3.4:99533570-99533589 None:intergenic 35.0%
TAGAATAAACGATGGATGCA+TGG + chr3.4:99533779-99533798 MS.gene063149:CDS 35.0%
! AACTCGAGTGAATATTTTCG+AGG + chr3.4:99533531-99533550 MS.gene063149:CDS 35.0%
! GATAAAAACAGAGATGGGTT+TGG + chr3.4:99533872-99533891 MS.gene063149:CDS 35.0%
! GTGATAACGATAAGAGTAAG+AGG + chr3.4:99533994-99534013 MS.gene063149:CDS 35.0%
! TGTGAATAGTGATGATGTGA+AGG + chr3.4:99533944-99533963 MS.gene063149:CDS 35.0%
!! TGAATATTTTCGAGGTTTCG+CGG + chr3.4:99533539-99533558 MS.gene063149:CDS 35.0%
!!! CCTGGTTTTGTTTTTCTTGT+TGG + chr3.4:99533567-99533586 MS.gene063149:CDS 35.0%
AAGGGTCGTAGAATAAACGA+TGG + chr3.4:99533771-99533790 MS.gene063149:CDS 40.0%
ATCACACTCATTGCTCAATC+TGG + chr3.4:99533603-99533622 MS.gene063149:CDS 40.0%
GTGTCAATCGGAAATTGAGT+TGG + chr3.4:99533914-99533933 MS.gene063149:CDS 40.0%
TCTTGCAATAAATGCCTCCA+CGG - chr3.4:99534102-99534121 None:intergenic 40.0%
TGGAAGTGAAGGGATATAGA+AGG + chr3.4:99533892-99533911 MS.gene063149:CDS 40.0%
TTCATTCCAACAACTACCGT+TGG + chr3.4:99533500-99533519 MS.gene063149:CDS 40.0%
!! AATCGGAAATTGAGTTGGTG+AGG + chr3.4:99533919-99533938 MS.gene063149:CDS 40.0%
!! ATCGGAAATTGAGTTGGTGA+GGG + chr3.4:99533920-99533939 MS.gene063149:CDS 40.0%
!! GGGATATAGAAGGTGTCAAT+CGG + chr3.4:99533902-99533921 MS.gene063149:CDS 40.0%
CTCGAGTTCTTCAAAGCCAA+CGG - chr3.4:99533519-99533538 None:intergenic 45.0%
TCAAAGCCAACGGTAGTTGT+TGG - chr3.4:99533509-99533528 None:intergenic 45.0%
TCGTTGCTCATTCCATCTTC+AGG - chr3.4:99534065-99534084 None:intergenic 45.0%
! AGAGATGGGTTTGGAAGTGA+AGG + chr3.4:99533881-99533900 MS.gene063149:CDS 45.0%
! GAGATGGGTTTGGAAGTGAA+GGG + chr3.4:99533882-99533901 MS.gene063149:CDS 45.0%
!! AGGATCAAAGAGTGCTGCAA+AGG + chr3.4:99533964-99533983 MS.gene063149:CDS 45.0%
!! TATTTTCGAGGTTTCGCGGT+TGG + chr3.4:99533543-99533562 MS.gene063149:CDS 45.0%
!! TCGGAAATTGAGTTGGTGAG+GGG + chr3.4:99533921-99533940 MS.gene063149:CDS 45.0%
CGAATTTCGTCGCACCGTGG+AGG + chr3.4:99534085-99534104 MS.gene063149:CDS 60.0%
CGACGAATTTCGTCGCACCG+TGG + chr3.4:99534082-99534101 MS.gene063149:CDS 60.0%
! CGAGGTTTCGCGGTTGGTCC+TGG + chr3.4:99533549-99533568 MS.gene063149:CDS 65.0%


Chromosome Type Strat End Strand Name
chr3.4 gene 99533366 99534166 99533366 ID=MS.gene063149
chr3.4 mRNA 99533366 99534166 99533366 ID=MS.gene063149.t1;Parent=MS.gene063149
chr3.4 exon 99533366 99534166 99533366 ID=MS.gene063149.t1.exon1;Parent=MS.gene063149.t1
chr3.4 CDS 99533366 99534166 99533366 ID=cds.MS.gene063149.t1;Parent=MS.gene063149.t1
Gene Sequence

>MS.gene063149

ATGGGTTCAATCAATTTACACAAACACAAAGCAGAGAAATCCAACAAAGTTCAAAAACATCGTCATCTTAGAAAGCTTGCAAATTTGTTTCGGTATGCAGAGATGTGTGTTGTGTTGATTTTGATTTCAAGGCTTTCATTCCAACAACTACCGTTGGCTTTGAAGAACTCGAGTGAATATTTTCGAGGTTTCGCGGTTGGTCCTGGTTTTGTTTTTCTTGTTGGAAACATTATTATCATCACACTCATTGCTCAATCTGGTCACTTCTCACGACATGATTCTGCAAAAAGAAGAAGAAGTTCAGAACATGATCTTTATCTCGAGTTTCTCAAGAATAGCAACATGTATCAGAAAATCCAAGGTTTTGATCAGAAAAAACTGAGCGTAAAAGTTGAGAACAACGTAAAGGGTCGTAGAATAAACGATGGATGCATGGTGAAATTCTCTGAGAAAGAGAGTAAAAAGAGTGAAGATGATAATAGAATGAAGTTGGAAGAGAAACAGGAGATAAAAACAGAGATGGGTTTGGAAGTGAAGGGATATAGAAGGTGTCAATCGGAAATTGAGTTGGTGAGGGGTGTGAATAGTGATGATGTGAAGGATCAAAGAGTGCTGCAAAGGTGTGAGAGTGATAACGATAAGAGTAAGAGGAAAAACATTGAAGTTGATAAAGTGAAAAAATCGAGTTTATTATATCCTGAAGATGGAATGAGCAACGACGAATTTCGTCGCACCGTGGAGGCATTTATTGCAAGACAACAGAAGCTACGAATAAACGAAGTACAAACCATTTATCCCTAG

Protein sequence

>MS.gene063149.t1

MGSINLHKHKAEKSNKVQKHRHLRKLANLFRYAEMCVVLILISRLSFQQLPLALKNSSEYFRGFAVGPGFVFLVGNIIIITLIAQSGHFSRHDSAKRRRSSEHDLYLEFLKNSNMYQKIQGFDQKKLSVKVENNVKGRRINDGCMVKFSEKESKKSEDDNRMKLEEKQEIKTEMGLEVKGYRRCQSEIELVRGVNSDDVKDQRVLQRCESDNDKSKRKNIEVDKVKKSSLLYPEDGMSNDEFRRTVEAFIARQQKLRINEVQTIYP