AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene07532


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene07532.t1 MTR_1g078210 94.915 59 2 1 66 124 110 167 4.33e-32 118
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene07532.t1 AT5G16260 53.968 63 23 3 66 124 124 184 1.05e-11 60.8

Find 37 sgRNAs with CRISPR-Local

Find 70 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATAAGTGGGATAAGAGTCTT+AGG 0.253904 1.1:+58695127 MS.gene07532:CDS
AAAATGGCAAAAGGAGATTA+AGG 0.329467 1.1:+58694984 MS.gene07532:intron
GATGTTGGATGGTACGTTCT+TGG 0.346116 1.1:+58694269 MS.gene07532:CDS
TTCGGTGGTGGTGGTGTAGT+AGG 0.376500 1.1:+58695036 MS.gene07532:CDS
CAAGTGGAAGCTTCGGAATT+CGG 0.395495 1.1:+58695018 MS.gene07532:CDS
GGCATATAAGCGGGTTCCTC+AGG 0.404098 1.1:+58695149 MS.gene07532:CDS
TCACCATCAGGCGGTGTTGA+AGG 0.424907 1.1:-58695075 None:intergenic
GTAAATTCTTCTTCACCATC+AGG 0.442135 1.1:-58695087 None:intergenic
TGAGGCGCAAGTGGAAGCTT+CGG 0.475916 1.1:+58695011 MS.gene07532:CDS
GCTGCGGATTTGAGATGAAA+AGG 0.480524 1.1:-58694201 None:intergenic
CACAATCAACCGCAACCTAC+TGG 0.481272 1.1:+58694155 MS.gene07532:CDS
CAGTAGGTTGCGGTTGATTG+TGG 0.484700 1.1:-58694154 None:intergenic
GCTTCGGAATTCGGTGGTGG+TGG 0.497213 1.1:+58695027 MS.gene07532:CDS
TAAGGAGGCTGAGGCGCAAG+TGG 0.518541 1.1:+58695002 MS.gene07532:CDS
GAAGAATTTACTGATGATGA+TGG 0.523794 1.1:+58695099 MS.gene07532:CDS
GGTGAAAATGTCGCAGATGT+TGG 0.532231 1.1:+58694254 MS.gene07532:CDS
TGTACCTCAGAGAAGACATA+AGG 0.556409 1.1:-58694314 None:intergenic
GAAGCTTCGGAATTCGGTGG+TGG 0.562716 1.1:+58695024 MS.gene07532:CDS
TATGTCTTCTCTGAGGTACA+AGG 0.569406 1.1:+58694317 MS.gene07532:CDS
GAGTCTTAGGGCATATAAGC+GGG 0.570694 1.1:+58695140 MS.gene07532:CDS
AAGAATTTACTGATGATGAT+GGG 0.578013 1.1:+58695100 MS.gene07532:CDS
ATGATGATGGGACATATAAG+TGG 0.580341 1.1:+58695112 MS.gene07532:CDS
TAGCGTGTACCAGTAGGTTG+CGG 0.584652 1.1:-58694164 None:intergenic
AAAGGAGATTAAGGAGGCTG+AGG 0.585827 1.1:+58694993 MS.gene07532:intron
TTTAACTGAGCTTGTTACGC+AGG 0.610781 1.1:+58694233 MS.gene07532:CDS
AGAAGTTAGCGTGTACCAGT+AGG 0.612483 1.1:-58694170 None:intergenic
GGAGAGAATCAACAACAACT+TGG 0.615030 1.1:+58694290 MS.gene07532:CDS
AGACCTTCAACACCGCCTGA+TGG 0.618261 1.1:+58695072 MS.gene07532:CDS
AGAGTCTTAGGGCATATAAG+CGG 0.635019 1.1:+58695139 MS.gene07532:CDS
TGGTCCTTATGTCTTCTCTG+AGG 0.638134 1.1:+58694310 MS.gene07532:CDS
AAAATGTCGCAGATGTTGGA+TGG 0.645277 1.1:+58694258 MS.gene07532:CDS
TAAGTGGGATAAGAGTCTTA+GGG 0.645357 1.1:+58695128 MS.gene07532:CDS
GTGGAAGCTTCGGAATTCGG+TGG 0.675726 1.1:+58695021 MS.gene07532:CDS
ATGGCAAAAGGAGATTAAGG+AGG 0.680476 1.1:+58694987 MS.gene07532:intron
AGTTAAAACAGAAATTGCTG+CGG 0.681196 1.1:-58694217 None:intergenic
AATTCTTCTTCACCATCAGG+CGG 0.682237 1.1:-58695084 None:intergenic
TGATGATGGGACATATAAGT+GGG 0.715635 1.1:+58695113 MS.gene07532:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTAAAATTTATTTGCTTTT+GGG + chr1.1:58694872-58694891 MS.gene07532:intron 10.0%
!!! TTTTAAAATTTATTTGCTTT+TGG + chr1.1:58694871-58694890 MS.gene07532:intron 10.0%
!!! TTTGTTATTATTATTTACTG+TGG + chr1.1:58694898-58694917 MS.gene07532:intron 15.0%
!! TTAATTTCAACATAAACACA+AGG - chr1.1:58694376-58694395 None:intergenic 20.0%
!!! AAAAGTTAAGCTTTAATTCA+TGG - chr1.1:58694826-58694845 None:intergenic 20.0%
!!! ATAAAAGTGTATTTTCTGAT+AGG - chr1.1:58694453-58694472 None:intergenic 20.0%
!!! TATCAGAAAATACACTTTTA+TGG + chr1.1:58694452-58694471 MS.gene07532:intron 20.0%
! AATTCAGAAATTGAAGACAA+AGG - chr1.1:58694502-58694521 None:intergenic 25.0%
! ATCTAACAGATATGATTGAT+TGG + chr1.1:58694780-58694799 MS.gene07532:intron 25.0%
! ATTATTATTTACTGTGGACT+TGG + chr1.1:58694904-58694923 MS.gene07532:intron 25.0%
! GTCTTCAATTTCTGAATTAT+GGG + chr1.1:58694504-58694523 MS.gene07532:intron 25.0%
! TGTCTTCAATTTCTGAATTA+TGG + chr1.1:58694503-58694522 MS.gene07532:intron 25.0%
!! AAGAATTTACTGATGATGAT+GGG + chr1.1:58695100-58695119 MS.gene07532:CDS 25.0%
!! ATTTCAGAGCATTTCTTAAA+TGG + chr1.1:58694424-58694443 MS.gene07532:intron 25.0%
AAAATGGCAAAAGGAGATTA+AGG + chr1.1:58694984-58695003 MS.gene07532:intron 30.0%
AGTTAAAACAGAAATTGCTG+CGG - chr1.1:58694220-58694239 None:intergenic 30.0%
TTGTTATGTAGTTTATGCTG+AGG + chr1.1:58694939-58694958 MS.gene07532:intron 30.0%
! AATACACTTTTATGGTCTGA+AGG + chr1.1:58694460-58694479 MS.gene07532:intron 30.0%
! GAAGAATTTACTGATGATGA+TGG + chr1.1:58695099-58695118 MS.gene07532:CDS 30.0%
! GATTTGAAATCTGTATCTTG+AGG + chr1.1:58694679-58694698 MS.gene07532:intron 30.0%
!! CTCTGAAATGTAAATTAGCA+AGG - chr1.1:58694413-58694432 None:intergenic 30.0%
AAAATTCTTACCACTGAGCT+AGG + chr1.1:58694711-58694730 MS.gene07532:intron 35.0%
ATAAGTGGGATAAGAGTCTT+AGG + chr1.1:58695127-58695146 MS.gene07532:CDS 35.0%
ATGTGGACGAGTTTGAAAAA+TGG + chr1.1:58694968-58694987 MS.gene07532:intron 35.0%
CGAGTTTGAAAAATGGCAAA+AGG + chr1.1:58694975-58694994 MS.gene07532:intron 35.0%
GATTTCAAATCACCTCATGA+CGG - chr1.1:58694670-58694689 None:intergenic 35.0%
GTAAATTCTTCTTCACCATC+AGG - chr1.1:58695090-58695109 None:intergenic 35.0%
TAAGTGGGATAAGAGTCTTA+GGG + chr1.1:58695128-58695147 MS.gene07532:CDS 35.0%
!! ATGATGATGGGACATATAAG+TGG + chr1.1:58695112-58695131 MS.gene07532:CDS 35.0%
!! CATAAACACAAGGCTTTGTT+TGG - chr1.1:58694366-58694385 None:intergenic 35.0%
!! TGATGATGGGACATATAAGT+GGG + chr1.1:58695113-58695132 MS.gene07532:CDS 35.0%
AAAATGTCGCAGATGTTGGA+TGG + chr1.1:58694258-58694277 MS.gene07532:CDS 40.0%
AAGACGAATTGGGTCTTTGA+GGG - chr1.1:58694540-58694559 None:intergenic 40.0%
AATTCTTCTTCACCATCAGG+CGG - chr1.1:58695087-58695106 None:intergenic 40.0%
ACCTCATGACGGTTGTAAAA+TGG - chr1.1:58694659-58694678 None:intergenic 40.0%
AGAGTCTTAGGGCATATAAG+CGG + chr1.1:58695139-58695158 MS.gene07532:CDS 40.0%
ATGGCAAAAGGAGATTAAGG+AGG + chr1.1:58694987-58695006 MS.gene07532:intron 40.0%
GACGGTTGTAAAATGGTCAA+TGG - chr1.1:58694652-58694671 None:intergenic 40.0%
GGAGAGAATCAACAACAACT+TGG + chr1.1:58694290-58694309 MS.gene07532:CDS 40.0%
TGTACCTCAGAGAAGACATA+AGG - chr1.1:58694317-58694336 None:intergenic 40.0%
! ACCATTTTACAACCGTCATG+AGG + chr1.1:58694655-58694674 MS.gene07532:intron 40.0%
!! TATGTCTTCTCTGAGGTACA+AGG + chr1.1:58694317-58694336 MS.gene07532:CDS 40.0%
!! TTTAACTGAGCTTGTTACGC+AGG + chr1.1:58694233-58694252 MS.gene07532:CDS 40.0%
AAAGGAGATTAAGGAGGCTG+AGG + chr1.1:58694993-58695012 MS.gene07532:intron 45.0%
ACCTGCAGTTGAAGACGAAT+TGG - chr1.1:58694551-58694570 None:intergenic 45.0%
AGAAGTTAGCGTGTACCAGT+AGG - chr1.1:58694173-58694192 None:intergenic 45.0%
CAAGTGGAAGCTTCGGAATT+CGG + chr1.1:58695018-58695037 MS.gene07532:CDS 45.0%
CCTGCAGTTGAAGACGAATT+GGG - chr1.1:58694550-58694569 None:intergenic 45.0%
GAAGACGAATTGGGTCTTTG+AGG - chr1.1:58694541-58694560 None:intergenic 45.0%
GAGTCTTAGGGCATATAAGC+GGG + chr1.1:58695140-58695159 MS.gene07532:CDS 45.0%
GATGTTGGATGGTACGTTCT+TGG + chr1.1:58694269-58694288 MS.gene07532:CDS 45.0%
GGTCTGAAGGAAGAACTGAA+TGG + chr1.1:58694473-58694492 MS.gene07532:intron 45.0%
GGTGAAAATGTCGCAGATGT+TGG + chr1.1:58694254-58694273 MS.gene07532:CDS 45.0%
TGGTCCTTATGTCTTCTCTG+AGG + chr1.1:58694310-58694329 MS.gene07532:CDS 45.0%
TTATGCTGAGGCTGAAGATG+TGG + chr1.1:58694951-58694970 MS.gene07532:intron 45.0%
! GCTGCGGATTTGAGATGAAA+AGG - chr1.1:58694204-58694223 None:intergenic 45.0%
CACAATCAACCGCAACCTAC+TGG + chr1.1:58694155-58694174 MS.gene07532:CDS 50.0%
CAGTAGGTTGCGGTTGATTG+TGG - chr1.1:58694157-58694176 None:intergenic 50.0%
CCCAATTCGTCTTCAACTGC+AGG + chr1.1:58694547-58694566 MS.gene07532:intron 50.0%
TAGCGTGTACCAGTAGGTTG+CGG - chr1.1:58694167-58694186 None:intergenic 50.0%
AGACCTTCAACACCGCCTGA+TGG + chr1.1:58695072-58695091 MS.gene07532:CDS 55.0%
CACTGTCAGCATATCGCACG+AGG + chr1.1:58694620-58694639 MS.gene07532:intron 55.0%
GTGGAAGCTTCGGAATTCGG+TGG + chr1.1:58695021-58695040 MS.gene07532:CDS 55.0%
TGAGGCGCAAGTGGAAGCTT+CGG + chr1.1:58695011-58695030 MS.gene07532:CDS 55.0%
! GAAGCTTCGGAATTCGGTGG+TGG + chr1.1:58695024-58695043 MS.gene07532:CDS 55.0%
! TCACCATCAGGCGGTGTTGA+AGG - chr1.1:58695078-58695097 None:intergenic 55.0%
!! CACTTGCTGTCCTAGCTCAG+TGG - chr1.1:58694724-58694743 None:intergenic 55.0%
!! TTCGGTGGTGGTGGTGTAGT+AGG + chr1.1:58695036-58695055 MS.gene07532:CDS 55.0%
TAAGGAGGCTGAGGCGCAAG+TGG + chr1.1:58695002-58695021 MS.gene07532:CDS 60.0%
! GCTTCGGAATTCGGTGGTGG+TGG + chr1.1:58695027-58695046 MS.gene07532:CDS 60.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 58694141 58695170 58694141 ID=MS.gene07532
chr1.1 mRNA 58694141 58695170 58694141 ID=MS.gene07532.t1;Parent=MS.gene07532
chr1.1 exon 58694141 58694338 58694141 ID=MS.gene07532.t1.exon1;Parent=MS.gene07532.t1
chr1.1 CDS 58694141 58694338 58694141 ID=cds.MS.gene07532.t1;Parent=MS.gene07532.t1
chr1.1 exon 58694997 58695170 58694997 ID=MS.gene07532.t1.exon2;Parent=MS.gene07532.t1
chr1.1 CDS 58694997 58695170 58694997 ID=cds.MS.gene07532.t1;Parent=MS.gene07532.t1
Gene Sequence

>MS.gene07532

ATGGCTACGAAAGCCACAATCAACCGCAACCTACTGGTACACGCTAACTTCTCTCTTTCTCCTTTTCATCTCAAATCCGCAGCAATTTCTGTTTTAACTGAGCTTGTTACGCAGGTGAAAATGTCGCAGATGTTGGATGGTACGTTCTTGGAGAGAATCAACAACAACTTGGTCCTTATGTCTTCTCTGAGGTACAAGGTAACTTCACTTCTCAGATTCTCACCAAACAAAGCCTTGTGTTTATGTTGAAATTAAACTTATAATAATTACCTTGCTAATTTACATTTCAGAGCATTTCTTAAATGGATACCTATCAGAAAATACACTTTTATGGTCTGAAGGAAGAACTGAATGGCAGCCTTTGTCTTCAATTTCTGAATTATGGGATCAAATTAACCCTCAAAGACCCAATTCGTCTTCAACTGCAGGTATAACTTTTTGAATTTAATTTTCATACACTGTCAGTTTAAAATATTTTACACTGTCAGCATATCGCACGAGGCATGCACCATTGACCATTTTACAACCGTCATGAGGTGATTTGAAATCTGTATCTTGAGGTTATATGACAAAATTCTTACCACTGAGCTAGGACAGCAAGTGTGAATTAGTTATGATAAAAGTCAAACATTTTTAATTATCTAACAGATATGATTGATTGGCAGTGTAAAAATTCTTTACACCATGAATTAAAGCTTAACTTTTTTTTTTTTTTTTTCTAACTTCTATTTTTTAAAATTTATTTGCTTTTGGGTTTTTTGTTATTATTATTTACTGTGGACTTGGATACAATGTGACTTGTTATGTAGTTTATGCTGAGGCTGAAGATGTGGACGAGTTTGAAAAATGGCAAAAGGAGATTAAGGAGGCTGAGGCGCAAGTGGAAGCTTCGGAATTCGGTGGTGGTGGTGTAGTAGGAGAAGACATTGAGAGACCTTCAACACCGCCTGATGGTGAAGAAGAATTTACTGATGATGATGGGACATATAAGTGGGATAAGAGTCTTAGGGCATATAAGCGGGTTCCTCAG

Protein sequence

>MS.gene07532.t1

MATKATINRNLLVHANFSLSPFHLKSAAISVLTELVTQVKMSQMLDGTFLERINNNLVLMSSLRYKEIKEAEAQVEASEFGGGGVVGEDIERPSTPPDGEEEFTDDDGTYKWDKSLRAYKRVPQ