AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene000360

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene000360.t1 MTR_1g069905 100.000 164 0 0 1 164 1 164 1.48e-120 337
MS.gene000360.t1 MTR_7g107420 99.390 164 1 0 1 164 1 164 2.29e-120 336
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene000360.t1 AT1G09690 81.098 164 31 0 1 164 1 164 3.44e-101 288
MS.gene000360.t1 AT1G09590 81.098 164 31 0 1 164 1 164 3.44e-101 288
MS.gene000360.t1 AT1G57860 80.488 164 32 0 1 164 1 164 1.04e-100 286
MS.gene000360.t1 AT1G57660 80.488 164 32 0 1 164 1 164 1.04e-100 286

Find 60 sgRNAs with CRISPR-Local

Find 87 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATGTCGACATTAGAGTTAA+TGG 0.335175 1.3:+49488189 MS.gene000360:CDS
TCCACCATGAAACCAGGTTT+GGG 0.345744 1.3:-49489348 None:intergenic
AACTCCTCAGTGCACCTTGA+TGG 0.353770 1.3:-49489237 None:intergenic
AGATCATTAACGACATCATA+TGG 0.366035 1.3:-49489402 None:intergenic
GGGGCCCTCTGGCTTGCGCT+TGG 0.369033 1.3:-49489328 None:intergenic
TTCCACCATGAAACCAGGTT+TGG 0.392778 1.3:-49489349 None:intergenic
GGGCCCCAAACCTGGTTTCA+TGG 0.399375 1.3:+49489344 MS.gene000360:CDS
TTAACGACATCATATGGAAT+TGG 0.408404 1.3:-49489396 None:intergenic
CTTGTTGACTTCGACACCAA+TGG 0.410846 1.3:-49488286 None:intergenic
AAACCAGGTTTGGGGCCCTC+TGG 0.418683 1.3:-49489339 None:intergenic
ACGGTCGTACCGGTCGTGTC+TGG 0.430669 1.3:+49488247 MS.gene000360:CDS
AAGCCAGAGGGCCCCAAACC+TGG 0.445982 1.3:+49489336 MS.gene000360:CDS
CTCTCCCTTGGCCTTAGCCT+CGG 0.448320 1.3:-49489295 None:intergenic
GGTGCTTATCACCTCTCCCT+TGG 0.453810 1.3:-49489307 None:intergenic
CTCTCGTCCCTTCCGCAAGA+AGG 0.461875 1.3:+49488119 MS.gene000360:CDS
TTCGACACCAATGGCCCGCT+TGG 0.477602 1.3:-49488277 None:intergenic
CGAGGCTAAGGCCAAGGGAG+AGG 0.486454 1.3:+49489296 MS.gene000360:CDS
GGGACGAGAGAATGAATCTC+TGG 0.494698 1.3:-49488106 None:intergenic
TATTGTTCCCTTCTTGCGGA+AGG 0.501884 1.3:-49488127 None:intergenic
AGCACCAAGCGCAAGCCAGA+GGG 0.504695 1.3:+49489324 MS.gene000360:CDS
TCAATTGAAGGCCGAGGCTA+AGG 0.510816 1.3:+49489284 MS.gene000360:CDS
AATGTCACCAAGCGGGCCAT+TGG 0.521717 1.3:+49488270 MS.gene000360:CDS
AAATTCTACCACGGTCGTAC+CGG 0.524822 1.3:+49488237 MS.gene000360:CDS
GATCAAGAATGATCAATTGA+AGG 0.525684 1.3:+49489272 MS.gene000360:CDS
GAAAACATGCCTGCAGGTCA+TGG 0.528675 1.3:+49488069 None:intergenic
GATCGTAAACCATGACCTGC+AGG 0.529368 1.3:-49488078 None:intergenic
ATTGTTCCCTTCTTGCGGAA+GGG 0.530894 1.3:-49488126 None:intergenic
CATGGTGGAAGGTGCTACAT+TGG 0.534415 1.3:+49489362 MS.gene000360:CDS
AGAGAATGAATCTCTGGTGC+GGG 0.544173 1.3:-49488100 None:intergenic
TCTCGTCCCTTCCGCAAGAA+GGG 0.545142 1.3:+49488120 MS.gene000360:CDS
TAGCGTTAGCCACCTACCTC+AGG 0.550280 1.3:+49488148 MS.gene000360:CDS
ACGCTATTGTTCCCTTCTTG+CGG 0.550599 1.3:-49488131 None:intergenic
GAATGATCAATTGAAGGCCG+AGG 0.551548 1.3:+49489278 MS.gene000360:CDS
AAGCACCAAGCGCAAGCCAG+AGG 0.557087 1.3:+49489323 MS.gene000360:CDS
GAAGAAGAAAACATGCCTGC+AGG 0.557795 1.3:+49488063 None:intergenic
TGGAGCATGTTATGCCATCA+AGG 0.559210 1.3:+49489223 MS.gene000360:CDS
GAAGGCCGAGGCTAAGGCCA+AGG 0.560874 1.3:+49489290 MS.gene000360:CDS
TGTCTGGAATGTCACCAAGC+GGG 0.572072 1.3:+49488263 MS.gene000360:CDS
GCACCTTCCACCATGAAACC+AGG 0.576804 1.3:-49489354 None:intergenic
AAACCTGGTTTCATGGTGGA+AGG 0.589005 1.3:+49489351 MS.gene000360:CDS
GCACTGAGGAGTTCAGATTG+AGG 0.599052 1.3:+49489247 MS.gene000360:CDS
GGTGACATTCCAGACACGAC+CGG 0.600537 1.3:-49488256 None:intergenic
ATGGCATAACATGCTCCACT+CGG 0.618716 1.3:-49489218 None:intergenic
GAGAGAATGAATCTCTGGTG+CGG 0.619187 1.3:-49488101 None:intergenic
GATGTCGTTAATGATCTCAA+AGG 0.621805 1.3:+49489408 MS.gene000360:CDS
GTTAATGGAGCTGTGCACAA+AGG 0.632022 1.3:+49488204 MS.gene000360:CDS
GTCGTTAATGATCTCAAAGG+AGG 0.636972 1.3:+49489411 MS.gene000360:CDS
AAGGCCGAGGCTAAGGCCAA+GGG 0.643263 1.3:+49489291 MS.gene000360:CDS
CCACCATGAAACCAGGTTTG+GGG 0.653619 1.3:-49489347 None:intergenic
GTGTCTGGAATGTCACCAAG+CGG 0.655012 1.3:+49488262 MS.gene000360:CDS
GTGATAAGTCCTGAGGTAGG+TGG 0.662852 1.3:-49488157 None:intergenic
CGACCGTGGTAGAATTTGTG+CGG 0.677873 1.3:-49488231 None:intergenic
CACCGATGTGATAAGTCCTG+AGG 0.683027 1.3:-49488164 None:intergenic
GATGTGATAAGTCCTGAGGT+AGG 0.683685 1.3:-49488160 None:intergenic
CCCCAAACCTGGTTTCATGG+TGG 0.684233 1.3:+49489347 MS.gene000360:CDS
AGACACGACCGGTACGACCG+TGG 0.690324 1.3:-49488245 None:intergenic
GAAGAGGATTCATGTCCGAG+TGG 0.705446 1.3:+49489203 MS.gene000360:CDS
TACCTCAGGACTTATCACAT+CGG 0.727991 1.3:+49488162 MS.gene000360:CDS
ATGCCGCACAAATTCTACCA+CGG 0.741255 1.3:+49488228 MS.gene000360:CDS
TATGCCATCAAGGTGCACTG+AGG 0.765204 1.3:+49489233 MS.gene000360:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATTTGTAGGAACATAAAAT+GGG - chr1.3:49488821-49488840 None:intergenic 20.0%
!!! ACATAAATGAAAGTATTTGT+AGG - chr1.3:49488834-49488853 None:intergenic 20.0%
!!! CAAAATTCTTCTAAGTTTTT+AGG + chr1.3:49488990-49489009 MS.gene000360:intron 20.0%
!!! GAAGAATTTTGTGTTAAATA+TGG - chr1.3:49488981-49489000 None:intergenic 20.0%
! AAGTTGGAAAACAAAAACTT+AGG - chr1.3:49488747-49488766 None:intergenic 25.0%
! CATCAAAATCATCATATATG+AGG + chr1.3:49488905-49488924 MS.gene000360:intron 25.0%
! GAACATAAAATGGGATAAAA+TGG - chr1.3:49488812-49488831 None:intergenic 25.0%
! GTATTTGTAGGAACATAAAA+TGG - chr1.3:49488822-49488841 None:intergenic 25.0%
! TCAAACAACAAAATGAATCA+AGG - chr1.3:49488604-49488623 None:intergenic 25.0%
! TTTGCTTTAGTAGTATATTC+AGG + chr1.3:49488526-49488545 MS.gene000360:intron 25.0%
!! ATCATATATGAGGTTTTTGA+AGG + chr1.3:49488915-49488934 MS.gene000360:intron 25.0%
!! TGACATCATGATGTTTTATA+TGG + chr1.3:49488948-49488967 MS.gene000360:intron 25.0%
!!! AATGTTGCTATTTATGTTTC+AGG + chr1.3:49489161-49489180 MS.gene000360:intron 25.0%
!!! ATTCGAGTGTTTTAATAAGT+TGG - chr1.3:49488763-49488782 None:intergenic 25.0%
!!! TTCTAAGTTTTTAGGTCTTA+AGG + chr1.3:49488998-49489017 MS.gene000360:intron 25.0%
AACAAAAACTTAGGCATGTT+TGG - chr1.3:49488738-49488757 None:intergenic 30.0%
AATCTCTTGGATAGAATGTA+TGG + chr1.3:49489058-49489077 MS.gene000360:intron 30.0%
AGATCATTAACGACATCATA+TGG - chr1.3:49489405-49489424 None:intergenic 30.0%
CAATATCTTTACAAGCAAAG+CGG - chr1.3:49489126-49489145 None:intergenic 30.0%
GATCAAGAATGATCAATTGA+AGG + chr1.3:49489272-49489291 MS.gene000360:CDS 30.0%
GCAAATATATGTGATGTGAT+AGG + chr1.3:49488419-49488438 MS.gene000360:intron 30.0%
TATGTCGACATTAGAGTTAA+TGG + chr1.3:49488189-49488208 MS.gene000360:CDS 30.0%
TTAACGACATCATATGGAAT+TGG - chr1.3:49489399-49489418 None:intergenic 30.0%
TTAATTTCCAGAGAATCTCT+TGG + chr1.3:49489045-49489064 MS.gene000360:intron 30.0%
! AGGTTAGGAACAAAATTTTG+AGG + chr1.3:49489181-49489200 MS.gene000360:intron 30.0%
!! TGCTATTTATGTTTCAGGTT+AGG + chr1.3:49489166-49489185 MS.gene000360:intron 30.0%
!!! GTTTTTTCACTGATTCGTAT+TGG + chr1.3:49488362-49488381 MS.gene000360:intron 30.0%
ATGTGATGTGATAGGTGTTA+TGG + chr1.3:49488427-49488446 MS.gene000360:intron 35.0%
ATTCTATCCAAGAGATTCTC+TGG - chr1.3:49489055-49489074 None:intergenic 35.0%
GATGTCGTTAATGATCTCAA+AGG + chr1.3:49489408-49489427 MS.gene000360:CDS 35.0%
TCCAATTCCAAGTGAGAAAT+TGG - chr1.3:49488864-49488883 None:intergenic 35.0%
TCCAATTTCTCACTTGGAAT+TGG + chr1.3:49488860-49488879 MS.gene000360:intron 35.0%
!! GGAACAAAATTTTGAGGAAG+AGG + chr1.3:49489187-49489206 MS.gene000360:CDS 35.0%
CAAGTCTCCAATTTCTCACT+TGG + chr1.3:49488854-49488873 MS.gene000360:intron 40.0%
GTCGTTAATGATCTCAAAGG+AGG + chr1.3:49489411-49489430 MS.gene000360:CDS 40.0%
TACCTCAGGACTTATCACAT+CGG + chr1.3:49488162-49488181 MS.gene000360:CDS 40.0%
AAATTCTACCACGGTCGTAC+CGG + chr1.3:49488237-49488256 MS.gene000360:CDS 45.0%
ACGCTATTGTTCCCTTCTTG+CGG - chr1.3:49488134-49488153 None:intergenic 45.0%
AGAGAATGAATCTCTGGTGC+GGG - chr1.3:49488103-49488122 None:intergenic 45.0%
ATGCCGCACAAATTCTACCA+CGG + chr1.3:49488228-49488247 MS.gene000360:CDS 45.0%
ATGGCATAACATGCTCCACT+CGG - chr1.3:49489221-49489240 None:intergenic 45.0%
ATTGTTCCCTTCTTGCGGAA+GGG - chr1.3:49488129-49488148 None:intergenic 45.0%
GAATGATCAATTGAAGGCCG+AGG + chr1.3:49489278-49489297 MS.gene000360:CDS 45.0%
GAGAGAATGAATCTCTGGTG+CGG - chr1.3:49488104-49488123 None:intergenic 45.0%
GATGTGATAAGTCCTGAGGT+AGG - chr1.3:49488163-49488182 None:intergenic 45.0%
GTTAATGGAGCTGTGCACAA+AGG + chr1.3:49488204-49488223 MS.gene000360:CDS 45.0%
TATTGTTCCCTTCTTGCGGA+AGG - chr1.3:49488130-49488149 None:intergenic 45.0%
TCCACCATGAAACCAGGTTT+GGG - chr1.3:49489351-49489370 None:intergenic 45.0%
TGGAGCATGTTATGCCATCA+AGG + chr1.3:49489223-49489242 MS.gene000360:CDS 45.0%
TTCCACCATGAAACCAGGTT+TGG - chr1.3:49489352-49489371 None:intergenic 45.0%
! AAACCTGGTTTCATGGTGGA+AGG + chr1.3:49489351-49489370 MS.gene000360:CDS 45.0%
!! CTTGTTGACTTCGACACCAA+TGG - chr1.3:49488289-49488308 None:intergenic 45.0%
AACTCCTCAGTGCACCTTGA+TGG - chr1.3:49489240-49489259 None:intergenic 50.0%
CACCGATGTGATAAGTCCTG+AGG - chr1.3:49488167-49488186 None:intergenic 50.0%
CCACCATGAAACCAGGTTTG+GGG - chr1.3:49489350-49489369 None:intergenic 50.0%
CGACCGTGGTAGAATTTGTG+CGG - chr1.3:49488234-49488253 None:intergenic 50.0%
GAAGAGGATTCATGTCCGAG+TGG + chr1.3:49489203-49489222 MS.gene000360:CDS 50.0%
GATCGTAAACCATGACCTGC+AGG - chr1.3:49488081-49488100 None:intergenic 50.0%
GCACTGAGGAGTTCAGATTG+AGG + chr1.3:49489247-49489266 MS.gene000360:CDS 50.0%
GGGACGAGAGAATGAATCTC+TGG - chr1.3:49488109-49488128 None:intergenic 50.0%
GTGATAAGTCCTGAGGTAGG+TGG - chr1.3:49488160-49488179 None:intergenic 50.0%
TATGCCATCAAGGTGCACTG+AGG + chr1.3:49489233-49489252 MS.gene000360:CDS 50.0%
TCAATTGAAGGCCGAGGCTA+AGG + chr1.3:49489284-49489303 MS.gene000360:CDS 50.0%
! GTGTCTGGAATGTCACCAAG+CGG + chr1.3:49488262-49488281 MS.gene000360:CDS 50.0%
! TGTCTGGAATGTCACCAAGC+GGG + chr1.3:49488263-49488282 MS.gene000360:CDS 50.0%
!! CATGGTGGAAGGTGCTACAT+TGG + chr1.3:49489362-49489381 MS.gene000360:CDS 50.0%
AATGTCACCAAGCGGGCCAT+TGG + chr1.3:49488270-49488289 MS.gene000360:CDS 55.0%
CCCCAAACCTGGTTTCATGG+TGG + chr1.3:49489347-49489366 MS.gene000360:CDS 55.0%
GCACCTTCCACCATGAAACC+AGG - chr1.3:49489357-49489376 None:intergenic 55.0%
GGTGACATTCCAGACACGAC+CGG - chr1.3:49488259-49488278 None:intergenic 55.0%
GGTGCTTATCACCTCTCCCT+TGG - chr1.3:49489310-49489329 None:intergenic 55.0%
TAGCGTTAGCCACCTACCTC+AGG + chr1.3:49488148-49488167 MS.gene000360:CDS 55.0%
TCTCGTCCCTTCCGCAAGAA+GGG + chr1.3:49488120-49488139 MS.gene000360:CDS 55.0%
AAGCACCAAGCGCAAGCCAG+AGG + chr1.3:49489323-49489342 MS.gene000360:CDS 60.0%
AAGGCCGAGGCTAAGGCCAA+GGG + chr1.3:49489291-49489310 MS.gene000360:CDS 60.0%
AGCACCAAGCGCAAGCCAGA+GGG + chr1.3:49489324-49489343 MS.gene000360:CDS 60.0%
CTCTCGTCCCTTCCGCAAGA+AGG + chr1.3:49488119-49488138 MS.gene000360:CDS 60.0%
GGGCCCCAAACCTGGTTTCA+TGG + chr1.3:49489344-49489363 MS.gene000360:CDS 60.0%
TTCGACACCAATGGCCCGCT+TGG - chr1.3:49488280-49488299 None:intergenic 60.0%
! AAACCAGGTTTGGGGCCCTC+TGG - chr1.3:49489342-49489361 None:intergenic 60.0%
!! CTCTCCCTTGGCCTTAGCCT+CGG - chr1.3:49489298-49489317 None:intergenic 60.0%
AAGCCAGAGGGCCCCAAACC+TGG + chr1.3:49489336-49489355 MS.gene000360:CDS 65.0%
AGACACGACCGGTACGACCG+TGG - chr1.3:49488248-49488267 None:intergenic 65.0%
CGAGGCTAAGGCCAAGGGAG+AGG + chr1.3:49489296-49489315 MS.gene000360:CDS 65.0%
GAAGGCCGAGGCTAAGGCCA+AGG + chr1.3:49489290-49489309 MS.gene000360:CDS 65.0%
! ACGGTCGTACCGGTCGTGTC+TGG + chr1.3:49488247-49488266 MS.gene000360:CDS 65.0%
! GGGGCCCTCTGGCTTGCGCT+TGG - chr1.3:49489331-49489350 None:intergenic 75.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 49488075 49489440 49488075 ID=MS.gene000360
chr1.3 mRNA 49488075 49489440 49488075 ID=MS.gene000360.t1;Parent=MS.gene000360
chr1.3 exon 49488075 49488311 49488075 ID=MS.gene000360.t1.exon1;Parent=MS.gene000360.t1
chr1.3 CDS 49488075 49488311 49488075 ID=cds.MS.gene000360.t1;Parent=MS.gene000360.t1
chr1.3 exon 49489183 49489440 49489183 ID=MS.gene000360.t1.exon2;Parent=MS.gene000360.t1
chr1.3 CDS 49489183 49489440 49489183 ID=cds.MS.gene000360.t1;Parent=MS.gene000360.t1
Gene Sequence

>MS.gene000360

ATGCCTGCAGGTCATGGTTTACGATCCCGCACCAGAGATTCATTCTCTCGTCCCTTCCGCAAGAAGGGAACAATAGCGTTAGCCACCTACCTCAGGACTTATCACATCGGTGACTATGTCGACATTAGAGTTAATGGAGCTGTGCACAAAGGTATGCCGCACAAATTCTACCACGGTCGTACCGGTCGTGTCTGGAATGTCACCAAGCGGGCCATTGGTGTCGAAGTCAACAAGCAAGTATGTCAAATCTTCTTATATTCATCACTTGTTTGATTCATTTTCATTTTGTTTTTTCACTGATTCGTATTGGTTAATGATTGATTTTAGTGTTTAGTGTTATATCTGCAAATATATGTGATGTGATAGGTGTTATGGCTTGTTCGATTGATATTTTTTTGTTTCATTTCGAGCTTTCTTTTGAATTGTTATGTATTTGTTGCAAGTATGTTTCTTTGCTTTAGTAGTATATTCAGGATCTAGTTTAAGTTGTTCATGTTACAAATGAATTGTTTATTGTTGTTTCATTCCTTGATTCATTTTGTTGTTTGAGATAGCTTACAGCTTATAGCATATACAGAAACAATTCAATTTTATTTTATCATTTGCAGCAAAAATAAGCTCTTATCATGACAATAAGCACTTGTGCTATAAGCTGTCTATCCAAACATGCCTAAGTTTTTGTTTTCCAACTTATTAAAACACTCGAATTTTGACTCTTATATTATATACTAGTACCATTTTATCCCATTTTATGTTCCTACAAATACTTTCATTTATGTCAAGTCTCCAATTTCTCACTTGGAATTGGAACAATTATTTATGAAAATTTTCATCAAAATCATCATATATGAGGTTTTTGAAGGAGACTGAACTTGACATCATGATGTTTTATATGGACTCGAACCATATTTAACACAAAATTCTTCTAAGTTTTTAGGTCTTAAGGTAAATGAGATTGAGACTAACATTTTTAATTTCCAGAGAATCTCTTGGATAGAATGTATGGTTGTTGCATAAGTATCTCAATTTTTTATGTTCTCTGCAAGTGCCGCTTTGCTTGTAAAGATATTGTTTACTCAATTTTAAAATGTTGCTATTTATGTTTCAGGTTAGGAACAAAATTTTGAGGAAGAGGATTCATGTCCGAGTGGAGCATGTTATGCCATCAAGGTGCACTGAGGAGTTCAGATTGAGGAAGATCAAGAATGATCAATTGAAGGCCGAGGCTAAGGCCAAGGGAGAGGTGATAAGCACCAAGCGCAAGCCAGAGGGCCCCAAACCTGGTTTCATGGTGGAAGGTGCTACATTGGAGACTGTTACTCCAATTCCATATGATGTCGTTAATGATCTCAAAGGAGGATACTAG
Protein sequence

>MS.gene000360.t1

MPAGHGLRSRTRDSFSRPFRKKGTIALATYLRTYHIGDYVDIRVNGAVHKGMPHKFYHGRTGRVWNVTKRAIGVEVNKQVRNKILRKRIHVRVEHVMPSRCTEEFRLRKIKNDQLKAEAKAKGEVISTKRKPEGPKPGFMVEGATLETVTPIPYDVVNDLKGGY