AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene69205

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene69205.t1 MTR_4g069160 99.198 374 3 0 1 374 1 374 0.0 761
MS.gene69205.t1 MTR_1g034480 75.936 374 85 3 1 373 1 370 0.0 535
MS.gene69205.t1 MTR_5g019430 57.937 378 152 4 1 371 1 378 6.94e-153 436
MS.gene69205.t1 MTR_8g078100 58.090 377 152 4 1 373 1 375 6.53e-143 410
MS.gene69205.t1 MTR_3g011140 56.164 73 31 1 284 355 1 73 1.31e-19 82.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene69205.t1 AT4G34320 74.599 374 88 2 1 373 1 368 0.0 528
MS.gene69205.t1 AT4G34320 74.599 374 88 2 1 373 1 368 0.0 528
MS.gene69205.t1 AT4G34330 58.537 369 132 3 1 369 1 348 2.08e-136 393
MS.gene69205.t1 AT2G18630 53.968 378 168 4 1 372 2 379 4.54e-135 391
MS.gene69205.t1 AT2G18630 53.968 378 168 4 1 372 2 379 6.28e-135 390
MS.gene69205.t1 AT5G66675 51.389 360 164 2 25 373 38 397 3.35e-123 362
MS.gene69205.t1 AT5G66675 51.389 360 164 2 25 373 38 397 3.35e-123 362
MS.gene69205.t1 AT5G66675 51.389 360 164 2 25 373 38 397 3.35e-123 362
MS.gene69205.t1 AT5G66675 51.389 360 164 2 25 373 38 397 3.35e-123 362
MS.gene69205.t1 AT5G66670 40.997 361 203 2 19 369 32 392 3.24e-89 275
MS.gene69205.t1 AT5G66670 40.997 361 203 2 19 369 32 392 3.24e-89 275
MS.gene69205.t1 AT5G66670 40.997 361 203 2 19 369 32 392 3.24e-89 275
MS.gene69205.t1 AT5G66670 40.997 361 203 2 19 369 32 392 3.24e-89 275
MS.gene69205.t1 AT5G66660 40.104 384 217 3 2 372 13 396 7.52e-86 266
MS.gene69205.t1 AT3G28270 32.044 362 219 8 29 368 16 372 5.43e-41 148
MS.gene69205.t1 AT3G28270 32.044 362 219 8 29 368 16 372 5.43e-41 148
MS.gene69205.t1 AT3G28290 29.144 374 235 10 23 368 9 380 4.08e-37 138
MS.gene69205.t1 AT3G28300 29.144 374 235 10 23 368 9 380 4.08e-37 138
MS.gene69205.t1 AT3G57100 26.019 319 206 8 66 368 43 347 5.21e-25 104
MS.gene69205.t1 AT3G28320 25.949 316 202 9 81 368 2 313 9.87e-21 92.0

Find 49 sgRNAs with CRISPR-Local

Find 55 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGAAGAATGTTGAAGATTT+AGG 0.197144 4.2:+37511480 MS.gene69205:CDS
CAACCAGCTCAAACAATTCT+TGG 0.249155 4.2:-37510768 None:intergenic
GTTGATGACTTGATTTGTTC+TGG 0.284311 4.2:-37510614 None:intergenic
GCTGCTAATGCTGCAGCAAC+AGG 0.301920 4.2:-37511189 None:intergenic
TTATGTAGCTATCAAGGATT+TGG 0.315820 4.2:+37511326 MS.gene69205:CDS
CTATCGGTTCGATGGGAAAA+TGG 0.316166 4.2:+37511226 MS.gene69205:CDS
ACCATAATTCTTCAAATGTT+AGG 0.338785 4.2:-37511576 None:intergenic
CTTGATTTGTTCTGGTTTGA+AGG 0.342243 4.2:-37510606 None:intergenic
TTCGTTCGAATCGCTGAAAC+AGG 0.346256 4.2:+37510669 MS.gene69205:CDS
GTCATCAACACTCTTGCTTC+TGG 0.357949 4.2:+37510628 MS.gene69205:CDS
GGAAGTTGTGAAAGTAATCT+TGG 0.367227 4.2:+37510720 MS.gene69205:CDS
ATAATTGTAGCCGTGACATT+AGG 0.416327 4.2:+37511514 MS.gene69205:CDS
AGAAGTGTTTGAAAAGAGCT+AGG 0.418522 4.2:+37510842 MS.gene69205:CDS
CGAAAACAGTTTGCAAACAT+TGG 0.422994 4.2:+37510801 MS.gene69205:CDS
GAAAATGGATTGATTCACTT+TGG 0.441988 4.2:+37511241 MS.gene69205:CDS
TTCGAGGAAGAATCTGAATC+AGG 0.454083 4.2:+37510901 MS.gene69205:CDS
ATTGGATTTCTGCACTGCAT+TGG 0.459448 4.2:+37510819 MS.gene69205:CDS
AGCTGAAAGGAATTCATTCA+TGG 0.459972 4.2:+37511082 MS.gene69205:CDS
AGCTGTGAAGATTGCTATAG+AGG 0.462018 4.2:+37511431 MS.gene69205:CDS
GAGCCAAGAATTGTTTGAGC+TGG 0.462448 4.2:+37510765 MS.gene69205:CDS
ATGTCTCCTTGAGATGAATC+AGG 0.463615 4.2:+37510699 MS.gene69205:CDS
TATCGATCGGCTGGAAATTG+AGG 0.473454 4.2:+37511365 MS.gene69205:CDS
AAAGGACAGAAAGAAGTCAT+TGG 0.479765 4.2:+37511285 MS.gene69205:CDS
ATCGATCCCTATCGGTTCGA+TGG 0.484266 4.2:+37511218 MS.gene69205:CDS
CCGCGTGCTTATCGATCGGC+TGG 0.484373 4.2:+37511356 MS.gene69205:CDS
TCGCAACAAGAATCAGCAAT+TGG 0.488179 4.2:-37510870 None:intergenic
TGGTACTTATGTAGCTATCA+AGG 0.491220 4.2:+37511320 MS.gene69205:CDS
TGGATTGCAAGAAAGACATA+TGG 0.495682 4.2:+37510740 MS.gene69205:CDS
TTGATTTGTTCTGGTTTGAA+GGG 0.498740 4.2:-37510605 None:intergenic
GCTAATGCTGCAGCAACAGG+TGG 0.499171 4.2:-37511186 None:intergenic
CAACTTCCTGATTCATCTCA+AGG 0.511965 4.2:-37510705 None:intergenic
ATTGTAGCCGTGACATTAGG+AGG 0.521279 4.2:+37511517 MS.gene69205:CDS
GAGGATATTAAGAAGAAACT+TGG 0.528427 4.2:+37511450 MS.gene69205:CDS
AACTATGAAATTGCATTGAA+AGG 0.532957 4.2:+37511267 MS.gene69205:CDS
TGATTCTTGTTGCGATTCAA+CGG 0.537293 4.2:+37510878 MS.gene69205:CDS
GCCGTGACATTAGGAGGGCT+AGG 0.555093 4.2:+37511523 MS.gene69205:CDS
GAAGTGTTTGAAAAGAGCTA+GGG 0.562150 4.2:+37510843 MS.gene69205:CDS
TGTTGCGATTCAACGGTTCG+AGG 0.563490 4.2:+37510885 MS.gene69205:CDS
GTCATTGGTTCAATGCAAGC+TGG 0.571219 4.2:+37511300 MS.gene69205:CDS
TCGATCCCTATCGGTTCGAT+GGG 0.575670 4.2:+37511219 MS.gene69205:CDS
TCCTAGCCCTCCTAATGTCA+CGG 0.589587 4.2:-37511524 None:intergenic
AAGCTTGATAAGAAGCTGAA+AGG 0.592917 4.2:+37511069 MS.gene69205:CDS
GCCGCTACATCGATCCCTAT+CGG 0.593918 4.2:+37511210 MS.gene69205:CDS
ATATCCGCGTGCTTATCGAT+CGG 0.631957 4.2:+37511352 MS.gene69205:CDS
ACCGATAGGGATCGATGTAG+CGG 0.636329 4.2:-37511211 None:intergenic
TTGTAGCCGTGACATTAGGA+GGG 0.664508 4.2:+37511518 MS.gene69205:CDS
TGAAAGGAATTCATTCATGG+AGG 0.690641 4.2:+37511085 MS.gene69205:CDS
CCAGCCGATCGATAAGCACG+CGG 0.719649 4.2:-37511356 None:intergenic
AGCTGGTGATCCTTTCACTG+AGG 0.742418 4.2:+37510972 MS.gene69205:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATAAACAGATTGAAAAATT+TGG - chr4.2:37511005-37511024 None:intergenic 15.0%
! AACTATGAAATTGCATTGAA+AGG + chr4.2:37511267-37511286 MS.gene69205:CDS 25.0%
! ATGAAGAATGTTGAAGATTT+AGG + chr4.2:37511480-37511499 MS.gene69205:CDS 25.0%
!!! TTGAAGAATTTTAAAACAGC+TGG + chr4.2:37510955-37510974 MS.gene69205:CDS 25.0%
GAGGATATTAAGAAGAAACT+TGG + chr4.2:37511450-37511469 MS.gene69205:CDS 30.0%
TTATGTAGCTATCAAGGATT+TGG + chr4.2:37511326-37511345 MS.gene69205:CDS 30.0%
!! GAAAATGGATTGATTCACTT+TGG + chr4.2:37511241-37511260 MS.gene69205:CDS 30.0%
!! TTGATTTGTTCTGGTTTGAA+GGG - chr4.2:37510608-37510627 None:intergenic 30.0%
AAAGGACAGAAAGAAGTCAT+TGG + chr4.2:37511285-37511304 MS.gene69205:CDS 35.0%
AAGCTTGATAAGAAGCTGAA+AGG + chr4.2:37511069-37511088 MS.gene69205:CDS 35.0%
AGCTGAAAGGAATTCATTCA+TGG + chr4.2:37511082-37511101 MS.gene69205:CDS 35.0%
ATAATTGTAGCCGTGACATT+AGG + chr4.2:37511514-37511533 MS.gene69205:CDS 35.0%
CGAAAACAGTTTGCAAACAT+TGG + chr4.2:37510801-37510820 MS.gene69205:CDS 35.0%
GGAAGTTGTGAAAGTAATCT+TGG + chr4.2:37510720-37510739 MS.gene69205:CDS 35.0%
TGAAAGGAATTCATTCATGG+AGG + chr4.2:37511085-37511104 MS.gene69205:CDS 35.0%
TGATTCTTGTTGCGATTCAA+CGG + chr4.2:37510878-37510897 MS.gene69205:CDS 35.0%
TGGATTGCAAGAAAGACATA+TGG + chr4.2:37510740-37510759 MS.gene69205:CDS 35.0%
TGGTACTTATGTAGCTATCA+AGG + chr4.2:37511320-37511339 MS.gene69205:CDS 35.0%
! GAAGTGTTTGAAAAGAGCTA+GGG + chr4.2:37510843-37510862 MS.gene69205:CDS 35.0%
!! AGAAGTGTTTGAAAAGAGCT+AGG + chr4.2:37510842-37510861 MS.gene69205:CDS 35.0%
!! CTTGATTTGTTCTGGTTTGA+AGG - chr4.2:37510609-37510628 None:intergenic 35.0%
!! GTTGATGACTTGATTTGTTC+TGG - chr4.2:37510617-37510636 None:intergenic 35.0%
!!! TGTTTTGATCTGTTCTGTTG+TGG + chr4.2:37511146-37511165 MS.gene69205:CDS 35.0%
AGCTGTGAAGATTGCTATAG+AGG + chr4.2:37511431-37511450 MS.gene69205:CDS 40.0%
ATGTCTCCTTGAGATGAATC+AGG + chr4.2:37510699-37510718 MS.gene69205:CDS 40.0%
ATTGGATTTCTGCACTGCAT+TGG + chr4.2:37510819-37510838 MS.gene69205:CDS 40.0%
CAACCAGCTCAAACAATTCT+TGG - chr4.2:37510771-37510790 None:intergenic 40.0%
CAACTTCCTGATTCATCTCA+AGG - chr4.2:37510708-37510727 None:intergenic 40.0%
TCGCAACAAGAATCAGCAAT+TGG - chr4.2:37510873-37510892 None:intergenic 40.0%
TGGAAAAACTCCTCAGTGAA+AGG - chr4.2:37510985-37511004 None:intergenic 40.0%
TTCGAGGAAGAATCTGAATC+AGG + chr4.2:37510901-37510920 MS.gene69205:CDS 40.0%
! ATTTTCCCATCGAACCGATA+GGG - chr4.2:37511227-37511246 None:intergenic 40.0%
! GATTTTGCAAGCTGCTTCAT+AGG - chr4.2:37510557-37510576 None:intergenic 40.0%
ATATCCGCGTGCTTATCGAT+CGG + chr4.2:37511352-37511371 MS.gene69205:CDS 45.0%
ATTGTAGCCGTGACATTAGG+AGG + chr4.2:37511517-37511536 MS.gene69205:CDS 45.0%
GAGCCAAGAATTGTTTGAGC+TGG + chr4.2:37510765-37510784 MS.gene69205:CDS 45.0%
GTCATCAACACTCTTGCTTC+TGG + chr4.2:37510628-37510647 MS.gene69205:CDS 45.0%
TATCGATCGGCTGGAAATTG+AGG + chr4.2:37511365-37511384 MS.gene69205:CDS 45.0%
TTCGTTCGAATCGCTGAAAC+AGG + chr4.2:37510669-37510688 MS.gene69205:CDS 45.0%
TTGTAGCCGTGACATTAGGA+GGG + chr4.2:37511518-37511537 MS.gene69205:CDS 45.0%
! CATTTTCCCATCGAACCGAT+AGG - chr4.2:37511228-37511247 None:intergenic 45.0%
!! CTATCGGTTCGATGGGAAAA+TGG + chr4.2:37511226-37511245 MS.gene69205:CDS 45.0%
!! GTCATTGGTTCAATGCAAGC+TGG + chr4.2:37511300-37511319 MS.gene69205:CDS 45.0%
ACCGATAGGGATCGATGTAG+CGG - chr4.2:37511214-37511233 None:intergenic 50.0%
AGCTGGTGATCCTTTCACTG+AGG + chr4.2:37510972-37510991 MS.gene69205:CDS 50.0%
TCCTAGCCCTCCTAATGTCA+CGG - chr4.2:37511527-37511546 None:intergenic 50.0%
TGTTGCGATTCAACGGTTCG+AGG + chr4.2:37510885-37510904 MS.gene69205:CDS 50.0%
!! ATCGATCCCTATCGGTTCGA+TGG + chr4.2:37511218-37511237 MS.gene69205:CDS 50.0%
!! TCGATCCCTATCGGTTCGAT+GGG + chr4.2:37511219-37511238 MS.gene69205:CDS 50.0%
GCCGCTACATCGATCCCTAT+CGG + chr4.2:37511210-37511229 MS.gene69205:CDS 55.0%
GCTAATGCTGCAGCAACAGG+TGG - chr4.2:37511189-37511208 None:intergenic 55.0%
GCTGCTAATGCTGCAGCAAC+AGG - chr4.2:37511192-37511211 None:intergenic 55.0%
CCAGCCGATCGATAAGCACG+CGG - chr4.2:37511359-37511378 None:intergenic 60.0%
GCCGTGACATTAGGAGGGCT+AGG + chr4.2:37511523-37511542 MS.gene69205:CDS 60.0%
CCGCGTGCTTATCGATCGGC+TGG + chr4.2:37511356-37511375 MS.gene69205:CDS 65.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 37510463 37511587 37510463 ID=MS.gene69205
chr4.2 mRNA 37510463 37511587 37510463 ID=MS.gene69205.t1;Parent=MS.gene69205
chr4.2 exon 37510463 37511587 37510463 ID=MS.gene69205.t1.exon1;Parent=MS.gene69205.t1
chr4.2 CDS 37510463 37511587 37510463 ID=cds.MS.gene69205.t1;Parent=MS.gene69205.t1
Gene Sequence

>MS.gene69205

ATGGGGAGTAATATGAGCAAAAAGACTCAAGAAACTTCATCTGCAGTTAACTTGACAACTACTGAATTGCACTACAAAACTGAACTAAGTTCCTATGAAGCAGCTTGCAAAATCGACACAGATTTGCAGACATTTGATTCAACCCTTCAAACCAGAACAAATCAAGTCATCAACACTCTTGCTTCTGGTGTTGAAGTTCGAGCACTTTCGTTCGAATCGCTGAAACAGGTCACAGAATGTCTCCTTGAGATGAATCAGGAAGTTGTGAAAGTAATCTTGGATTGCAAGAAAGACATATGGAAGAGCCAAGAATTGTTTGAGCTGGTTGAAGAATATTTCGAAAACAGTTTGCAAACATTGGATTTCTGCACTGCATTGGAGAAGTGTTTGAAAAGAGCTAGGGATAGCCAATTGCTGATTCTTGTTGCGATTCAACGGTTCGAGGAAGAATCTGAATCAGGAGACAAATGCTATGCAAGAACATTGCAAGAATTGAAGAATTTTAAAACAGCTGGTGATCCTTTCACTGAGGAGTTTTTCCAAATTTTTCAATCTGTTTATAAGCAACAGACTTCAATGCTTGAAAAGCTTCAAATCAGAAAGAACAAGCTTGATAAGAAGCTGAAAGGAATTCATTCATGGAGGAAAGTTTCAAGTATGATATTTGTTGCTACATTTGCAGCTGTTTTGATCTGTTCTGTTGTGGCAGCAGCTATTGCAGCTCCACCTGTTGCTGCAGCATTAGCAGCCGCTACATCGATCCCTATCGGTTCGATGGGAAAATGGATTGATTCACTTTGGAGAAACTATGAAATTGCATTGAAAGGACAGAAAGAAGTCATTGGTTCAATGCAAGCTGGTACTTATGTAGCTATCAAGGATTTGGACAATATCCGCGTGCTTATCGATCGGCTGGAAATTGAGGTTGAATCTTTGCTGCATACTGTTGATTTTGCAATTGAAGAAGAAGCTGTGAAGATTGCTATAGAGGATATTAAGAAGAAACTTGGTGTGTTTATGAAGAATGTTGAAGATTTAGGAGTTCAAGCTGATAATTGTAGCCGTGACATTAGGAGGGCTAGGACTGTTGTTCTGCAAAGAATCATAAAGCATCCTAACATTTGA
Protein sequence

>MS.gene69205.t1

MGSNMSKKTQETSSAVNLTTTELHYKTELSSYEAACKIDTDLQTFDSTLQTRTNQVINTLASGVEVRALSFESLKQVTECLLEMNQEVVKVILDCKKDIWKSQELFELVEEYFENSLQTLDFCTALEKCLKRARDSQLLILVAIQRFEEESESGDKCYARTLQELKNFKTAGDPFTEEFFQIFQSVYKQQTSMLEKLQIRKNKLDKKLKGIHSWRKVSSMIFVATFAAVLICSVVAAAIAAPPVAAALAAATSIPIGSMGKWIDSLWRNYEIALKGQKEVIGSMQAGTYVAIKDLDNIRVLIDRLEIEVESLLHTVDFAIEEEAVKIAIEDIKKKLGVFMKNVEDLGVQADNCSRDIRRARTVVLQRIIKHPNI