AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene067191

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene067191.t1 MTR_1g035640 51.656 151 69 1 1 151 145 291 1.66e-44 152
MS.gene067191.t1 MTR_1g035570 52.667 150 64 3 7 154 156 300 1.78e-42 145
MS.gene067191.t1 MTR_1g035620 58.156 141 47 6 6 142 149 281 7.89e-42 144
MS.gene067191.t1 MTR_1g050845 58.156 141 48 5 6 142 136 269 6.46e-37 134
MS.gene067191.t1 MTR_6g061070 45.283 159 78 4 2 151 175 333 2.84e-36 130
MS.gene067191.t1 MTR_1g035490 45.946 148 64 2 1 146 69 202 6.98e-36 127
MS.gene067191.t1 MTR_1g035650 91.667 60 5 0 1 60 144 203 1.22e-32 115
MS.gene067191.t1 MTR_5g044670 35.484 124 76 3 29 151 194 314 1.40e-17 78.6
MS.gene067191.t1 MTR_7g050590 36.364 121 70 4 33 147 168 287 2.48e-12 63.5
MS.gene067191.t1 MTR_1g035540 53.191 47 22 0 105 151 31 77 6.25e-12 60.1
MS.gene067191.t1 MTR_7g050580 34.167 120 73 4 33 147 179 297 1.70e-11 61.2
MS.gene067191.t1 MTR_7g050560 33.553 152 80 7 9 147 154 297 2.28e-11 60.8
MS.gene067191.t1 MTR_1g035460 30.476 105 67 1 43 147 196 294 3.88e-11 60.5
MS.gene067191.t1 MTR_8g103940 34.234 111 66 3 34 144 232 335 7.02e-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 23 sgRNAs with CRISPR-Local

Find 39 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTATGCCAAAGGTTATTATT+TGG 0.225677 1.2:-20728551 MS.gene067191:intron
TGACATTTCAAGTTCAAAAC+TGG 0.269040 1.2:+20728579 None:intergenic
AGCAAGAAATTATCATCCTT+TGG 0.369605 1.2:-20728608 MS.gene067191:CDS
AACTTCAACTTCTTAGAGTT+AGG 0.417697 1.2:+20727780 None:intergenic
ACATACCAAATAATAACCTT+TGG 0.448389 1.2:+20728546 None:intergenic
AACTTTGCAGGTTGTAATAG+AGG 0.470896 1.2:-20728685 MS.gene067191:intron
ATGATAACAGTGAATAAAAG+TGG 0.491662 1.2:+20727822 None:intergenic
TATCATTACTCGAGCAAGAA+AGG 0.498034 1.2:-20727805 MS.gene067191:CDS
GGTCACAGTAGATGATTTAG+TGG 0.504279 1.2:+20727923 None:intergenic
TAGAGGAGGCAAGATTAAGA+AGG 0.551943 1.2:-20728668 MS.gene067191:CDS
CATCTACTGTGACCACTGGT+TGG 0.552617 1.2:-20727914 MS.gene067191:CDS
GACATTTCAAGTTCAAAACT+GGG 0.554306 1.2:+20728580 None:intergenic
AAATCATCTACTGTGACCAC+TGG 0.561649 1.2:-20727918 MS.gene067191:CDS
TAACAGTGAATAAAAGTGGT+TGG 0.571261 1.2:+20727826 None:intergenic
TCTAAGAAGTTGAAGTTGCA+AGG 0.578037 1.2:-20727774 MS.gene067191:CDS
ATGTCACAATCTTATGCCAA+AGG 0.587398 1.2:-20728562 MS.gene067191:CDS
GCTAAATGTCTTCCAACCAG+TGG 0.593840 1.2:+20727902 None:intergenic
TTCACCAACTCGAAATCTTG+CGG 0.607244 1.2:+20727983 None:intergenic
ATTTCGAGTTGGTGAAGACA+TGG 0.607925 1.2:-20727976 MS.gene067191:CDS
TATTGAAACAGAGGATACCA+AGG 0.618184 1.2:-20728043 MS.gene067191:intron
TTTGCAGGTTGTAATAGAGG+AGG 0.626297 1.2:-20728682 MS.gene067191:intron
GGGACCGCAAGATTTCGAGT+TGG 0.639670 1.2:-20727987 MS.gene067191:CDS
ATTGAAACAGAGGATACCAA+GGG 0.647834 1.2:-20728042 MS.gene067191:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAATAATTTAATTTTTTTTA+AGG - chr1.2:20728048-20728067 MS.gene067191:intron 0.0%
!! TATAAAACAAAATCTAATGA+AGG + chr1.2:20728312-20728331 None:intergenic 15.0%
!!! AAAAAATATAATTTGCAAGT+TGG - chr1.2:20728660-20728679 MS.gene067191:CDS 15.0%
!!! TTTATAAAAGTGTAACAAAT+GGG - chr1.2:20728326-20728345 MS.gene067191:intron 15.0%
!!! TTTTATAAAAGTGTAACAAA+TGG - chr1.2:20728325-20728344 MS.gene067191:intron 15.0%
!! TAAGAGAAAATTGTCAAAAT+AGG - chr1.2:20728272-20728291 MS.gene067191:intron 20.0%
!!! TCTATCAAAATTCTCTATTT+TGG - chr1.2:20728018-20728037 MS.gene067191:CDS 20.0%
! AATACTTGAAAAAGTTGGAA+GGG - chr1.2:20728532-20728551 MS.gene067191:intron 25.0%
! ACAAACTAATATTGAAACAG+AGG - chr1.2:20728487-20728506 MS.gene067191:intron 25.0%
! ACATACCAAATAATAACCTT+TGG + chr1.2:20727996-20728015 None:intergenic 25.0%
! ATGATAACAGTGAATAAAAG+TGG + chr1.2:20728720-20728739 None:intergenic 25.0%
! GCTAATCAGAAAAAAATCAA+AGG - chr1.2:20727749-20727768 MS.gene067191:CDS 25.0%
! TTATGCCAAAGGTTATTATT+TGG - chr1.2:20727988-20728007 MS.gene067191:CDS 25.0%
!!! TTTTTTATGTGTAACTTTGC+AGG - chr1.2:20727842-20727861 MS.gene067191:CDS 25.0%
AACTTCAACTTCTTAGAGTT+AGG + chr1.2:20728762-20728781 None:intergenic 30.0%
AGCAAGAAATTATCATCCTT+TGG - chr1.2:20727931-20727950 MS.gene067191:CDS 30.0%
GAATACTTGAAAAAGTTGGA+AGG - chr1.2:20728531-20728550 MS.gene067191:intron 30.0%
GAGAGAATACTTGAAAAAGT+TGG - chr1.2:20728527-20728546 MS.gene067191:intron 30.0%
TAACAGTGAATAAAAGTGGT+TGG + chr1.2:20728716-20728735 None:intergenic 30.0%
!! GACATTTCAAGTTCAAAACT+GGG + chr1.2:20727962-20727981 None:intergenic 30.0%
!! TGACATTTCAAGTTCAAAAC+TGG + chr1.2:20727963-20727982 None:intergenic 30.0%
AACTTTGCAGGTTGTAATAG+AGG - chr1.2:20727854-20727873 MS.gene067191:CDS 35.0%
ATGTCACAATCTTATGCCAA+AGG - chr1.2:20727977-20727996 MS.gene067191:CDS 35.0%
ATTGAAACAGAGGATACCAA+GGG - chr1.2:20728497-20728516 MS.gene067191:intron 35.0%
TATCATTACTCGAGCAAGAA+AGG - chr1.2:20728734-20728753 MS.gene067191:intron 35.0%
TATTCTCTCGAAAAATCCCT+TGG + chr1.2:20728516-20728535 None:intergenic 35.0%
TATTGAAACAGAGGATACCA+AGG - chr1.2:20728496-20728515 MS.gene067191:intron 35.0%
TCTAAGAAGTTGAAGTTGCA+AGG - chr1.2:20728765-20728784 MS.gene067191:intron 35.0%
! TCAAAACTGGGATTTTCCAA+AGG + chr1.2:20727950-20727969 None:intergenic 35.0%
AAATCATCTACTGTGACCAC+TGG - chr1.2:20728621-20728640 MS.gene067191:CDS 40.0%
GGTCACAGTAGATGATTTAG+TGG + chr1.2:20728619-20728638 None:intergenic 40.0%
TAGAGGAGGCAAGATTAAGA+AGG - chr1.2:20727871-20727890 MS.gene067191:CDS 40.0%
TTCACCAACTCGAAATCTTG+CGG + chr1.2:20728559-20728578 None:intergenic 40.0%
TTTGCAGGTTGTAATAGAGG+AGG - chr1.2:20727857-20727876 MS.gene067191:CDS 40.0%
!! ATTTCGAGTTGGTGAAGACA+TGG - chr1.2:20728563-20728582 MS.gene067191:CDS 40.0%
GCTAAATGTCTTCCAACCAG+TGG + chr1.2:20728640-20728659 None:intergenic 45.0%
!!! TATATCTAATATTTTTTTTA+AGG - chr1.2:20728073-20728092 MS.gene067191:intron 5.0%
CATCTACTGTGACCACTGGT+TGG - chr1.2:20728625-20728644 MS.gene067191:CDS 50.0%
! GGGACCGCAAGATTTCGAGT+TGG - chr1.2:20728552-20728571 MS.gene067191:CDS 55.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 20727737 20728824 20727737 ID=MS.gene067191
chr1.2 mRNA 20727737 20728824 20727737 ID=MS.gene067191.t1;Parent=MS.gene067191
chr1.2 exon 20728791 20728824 20728791 ID=MS.gene067191.t1.exon1;Parent=MS.gene067191.t1
chr1.2 CDS 20728791 20728824 20728791 ID=cds.MS.gene067191.t1;Parent=MS.gene067191.t1
chr1.2 exon 20728552 20728697 20728552 ID=MS.gene067191.t1.exon2;Parent=MS.gene067191.t1
chr1.2 CDS 20728552 20728697 20728552 ID=cds.MS.gene067191.t1;Parent=MS.gene067191.t1
chr1.2 exon 20727737 20728054 20727737 ID=MS.gene067191.t1.exon3;Parent=MS.gene067191.t1
chr1.2 CDS 20727737 20728054 20727737 ID=cds.MS.gene067191.t1;Parent=MS.gene067191.t1
Gene Sequence

>MS.gene067191

ATGGATCTTGATGCTAATCAGAAAAAAATCAAAGGTGATTACATCTAATAATTTTCTTATTTCATATTTTTGCTTGTAACTTGTAAATGTCAAAATTAGTTTCATTTTTTTATGTGTAACTTTGCAGGTTGTAATAGAGGAGGCAAGATTAAGAAGGCAAAAAAATGCTTAAGAACTGAAGCTGTTAAAGAGAGAGCAAGAAATTATCATCCTTTGGAAAATCCCAGTTTTGAACTTGAAATGTCACAATCTTATGCCAAAGGTTATTATTTGGTATGTTTTCTATCAAAATTCTCTATTTTGGCTTTAATAAATAATTTAATTTTTTTTAAGGAATATATCTAATATTTTTTTTAAGGAATATCTCTAGTGAACTGTGAATTGAGCTTCATGTTTTTTTTTCTGCTAAAAAAAACTGATTTTAATATTAATAATTTTATATTAGTTTATCATTTAAAAAAATAAAAATAATTTTATAATTCTTTATCATAATGAAAATAATTTTCTAATAAATAAAATATCTATCAATTATTTTTAAGAGAAAATTGTCAAAATAGGATTCATATTTTAAGCCTTCATTAGATTTTGTTTTATAAAAGTGTAACAAATGGGTAAAAATCTTTAAAAGTAATAGTAGCAAGTATTTTTATTTTTCTTTGTCAAAAATTTTATAAAAGTGTAACAAATGGATAAAAATATTTAAAAGTAATAGTAGCAAGTATTTATTTTTTAAAAGTATTTTTTTTTTTAACAAACTAATATTGAAACAGAGGATACCAAGGGATTTTTCGAGAGAATACTTGAAAAAGTTGGAAGGGACCGCAAGATTTCGAGTTGGTGAAGACATGGCTATAGAAGTGAAGTTGAATTTTGATGATACCACTAAATCATCTACTGTGACCACTGGTTGGAAGACATTTAGCAAAAAATATAATTTGCAAGTTGGTGATGTTTGTAAATTTGTGATGACTCAATGCCAACCACTTTTATTCACTGTTATCATTACTCGAGCAAGAAAGGAACCTAACTCTAAGAAGTTGAAGTTGCAAGGTCTTTTATTTTTTGTTATTAAAGATGCTTTTAATTGA
Protein sequence

>MS.gene067191.t1

MDLDANQKKIKGCNRGGKIKKAKKCLRTEAVKERARNYHPLENPSFELEMSQSYAKGYYLRIPRDFSREYLKKLEGTARFRVGEDMAIEVKLNFDDTTKSSTVTTGWKTFSKKYNLQVGDVCKFVMTQCQPLLFTVIITRARKEPNSKKLKLQGLLFFVIKDAFN