AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene95366

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene95366.t1 MTR_1g033340 92.996 257 11 2 1 256 1 251 3.39e-179 492
MS.gene95366.t1 MTR_5g077370 43.726 263 107 10 6 256 4 237 1.77e-55 178
MS.gene95366.t1 MTR_3g065020 40.316 253 133 7 5 256 3 238 5.55e-55 177
MS.gene95366.t1 MTR_2g104900 66.234 77 21 2 96 167 81 157 2.61e-27 105
MS.gene95366.t1 MTR_1g013130 40.909 132 56 2 58 167 49 180 5.00e-24 97.4
MS.gene95366.t1 MTR_1g107055 34.595 185 96 8 41 217 8 175 2.31e-20 86.3
MS.gene95366.t1 MTR_3g106230 44.828 116 42 6 68 167 49 158 7.37e-20 85.5
MS.gene95366.t1 MTR_4g006575 55.556 72 24 2 96 167 67 130 5.76e-18 80.5
MS.gene95366.t1 MTR_4g006600 55.556 72 24 2 96 167 67 130 5.76e-18 80.5
MS.gene95366.t1 MTR_4g128340 52.632 76 32 2 96 169 45 118 2.25e-16 74.7
MS.gene95366.t1 MTR_7g086860 51.923 52 24 1 81 132 16 66 5.27e-12 62.4
MS.gene95366.t1 MTR_7g083210 69.697 33 10 0 96 128 39 71 2.91e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene95366.t1 AT1G66140 41.758 182 81 6 96 256 83 260 5.19e-37 131
MS.gene95366.t1 AT1G24625 40.000 210 86 9 54 256 33 209 4.20e-31 114
MS.gene95366.t1 AT1G80730 55.682 88 23 2 96 167 66 153 1.19e-23 95.9
MS.gene95366.t1 AT5G10970 54.321 81 33 2 90 167 96 175 9.83e-21 89.0
MS.gene95366.t1 AT5G25160 51.163 86 36 3 87 167 50 134 9.65e-20 85.5
MS.gene95366.t1 AT5G57520 51.515 66 32 0 96 161 50 115 1.41e-15 72.4
MS.gene95366.t1 AT5G14010 46.575 73 28 1 92 153 32 104 9.39e-15 70.5
MS.gene95366.t1 AT5G01860 57.500 40 17 0 96 135 65 104 2.29e-11 62.0

Find 47 sgRNAs with CRISPR-Local

Find 52 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCAGCTTCCAAGTTCAAATT+TGG 0.203450 1.3:-18481853 None:intergenic
ATGAAGATGTCGGCGTATTT+TGG 0.224650 1.3:+18482448 MS.gene95366:CDS
GACATCAGAATGCTCATAAA+AGG 0.253068 1.3:+18482184 MS.gene95366:CDS
TTAGCTTCTTTACCTCTTCA+TGG 0.299313 1.3:+18482267 MS.gene95366:CDS
AGAAGTTGTGGCACTGTCTT+TGG 0.313022 1.3:-18481944 None:intergenic
TTTATCTGCCTGAAACTTCC+AGG 0.347691 1.3:-18482471 None:intergenic
AAATTCGAGAAAGATTGTTT+TGG 0.369690 1.3:+18482402 MS.gene95366:CDS
AGCTAAGCTTGTATACCTTT+CGG 0.370401 1.3:-18482250 None:intergenic
ACGATGATGGCATATGGTTT+TGG 0.377290 1.3:-18482338 None:intergenic
CCTATCCTGATCTTACTTTG+AGG 0.413927 1.3:+18482583 MS.gene95366:CDS
TCCTTCAAATCTTCATCGCT+CGG 0.430932 1.3:-18482030 None:intergenic
GCCGAGCGATGAAGATTTGA+AGG 0.434759 1.3:+18482029 MS.gene95366:CDS
CACAACTTCTTGTCTTACTA+AGG 0.439607 1.3:+18481957 MS.gene95366:CDS
TTCTTTAGCTCACAAGCGTT+AGG 0.463186 1.3:+18482159 MS.gene95366:CDS
TCGGCTCGAAGTTGAGAGTC+AGG 0.476212 1.3:-18482011 None:intergenic
GTAGTAGATGTTTGTTGAGG+AGG 0.483825 1.3:-18482561 None:intergenic
TCTTTCTCGAATTTCGCTGC+AGG 0.490019 1.3:-18482393 None:intergenic
GAAGACTCCAAATTTGAACT+TGG 0.507535 1.3:+18481846 MS.gene95366:CDS
ACTAAGGCAGACATCAATCC+AGG 0.507613 1.3:+18481973 MS.gene95366:CDS
ATCAGCATCGACGACGATGA+TGG 0.511996 1.3:-18482351 None:intergenic
CAAAGCGCGCTATGCAAGTA+GGG 0.513002 1.3:+18482220 MS.gene95366:CDS
TAAAGCCTCAAAGTAAGATC+AGG 0.515851 1.3:-18482588 None:intergenic
TCTCTTGTAATTATTGTAGG+AGG 0.522769 1.3:+18482133 MS.gene95366:CDS
TGATTCTTGTAAGTATATGT+TGG 0.525252 1.3:-18481908 None:intergenic
GCAAAGCGCGCTATGCAAGT+AGG 0.525984 1.3:+18482219 MS.gene95366:CDS
ACATCAGAATGCTCATAAAA+GGG 0.526603 1.3:+18482185 MS.gene95366:CDS
CCTCAAAGTAAGATCAGGAT+AGG 0.529476 1.3:-18482583 None:intergenic
GAGAAAACTCTATGAATCGT+TGG 0.530449 1.3:-18482114 None:intergenic
CATCGTCGTCGATGCTGATG+AGG 0.540974 1.3:+18482355 MS.gene95366:CDS
AGGTCAAGGGAAATAGAACC+TGG 0.542650 1.3:-18481991 None:intergenic
AGTATATGTTGGAACCTACT+TGG 0.544787 1.3:-18481897 None:intergenic
TCGACGACGATGATGGCATA+TGG 0.558903 1.3:-18482344 None:intergenic
CGAAGTTGAGAGTCAGGTCA+AGG 0.567959 1.3:-18482005 None:intergenic
ATCGTCGTCGATGCTGATGA+GGG 0.568860 1.3:+18482356 MS.gene95366:CDS
TTTAGCTCACAAGCGTTAGG+AGG 0.570693 1.3:+18482162 MS.gene95366:CDS
TAGGTAGTAGATGTTTGTTG+AGG 0.576261 1.3:-18482564 None:intergenic
AACTCTATGAATCGTTGGTG+CGG 0.596598 1.3:-18482109 None:intergenic
TTAGAAGTAAGCAGCCAAGT+AGG 0.598009 1.3:+18481883 MS.gene95366:CDS
AAAGAAGAAGAACCATGAAG+AGG 0.622542 1.3:-18482279 None:intergenic
CTTAGTAAGACAAGAAGTTG+TGG 0.624602 1.3:-18481956 None:intergenic
AAGTAGGGATGTTTACCGAA+AGG 0.636930 1.3:+18482235 MS.gene95366:CDS
GAAGTTGAGAGTCAGGTCAA+GGG 0.642054 1.3:-18482004 None:intergenic
TTTATGCATAATGAAGATGT+CGG 0.651635 1.3:+18482438 MS.gene95366:CDS
GACACTAATAGTGAAGTACT+AGG 0.655462 1.3:+18482060 MS.gene95366:CDS
TCTTCATTATGCATAAACAT+CGG 0.674163 1.3:-18482432 None:intergenic
TCATAAAAGGGAGAGAACGA+TGG 0.677286 1.3:+18482197 MS.gene95366:CDS
GCATGAGCTTGAATCCCAAG+AGG 0.685243 1.3:-18482306 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTCTCTTGTAATTATTGT+AGG + chr1.3:18482130-18482149 MS.gene95366:CDS 20.0%
! TCTTCATTATGCATAAACAT+CGG - chr1.3:18482435-18482454 None:intergenic 25.0%
! TGATTCTTGTAAGTATATGT+TGG - chr1.3:18481911-18481930 None:intergenic 25.0%
! TTTATGCATAATGAAGATGT+CGG + chr1.3:18482438-18482457 MS.gene95366:CDS 25.0%
!! AAATTCGAGAAAGATTGTTT+TGG + chr1.3:18482402-18482421 MS.gene95366:CDS 25.0%
ACATCAGAATGCTCATAAAA+GGG + chr1.3:18482185-18482204 MS.gene95366:CDS 30.0%
TCTCTTGTAATTATTGTAGG+AGG + chr1.3:18482133-18482152 MS.gene95366:CDS 30.0%
AAAGAAGAAGAACCATGAAG+AGG - chr1.3:18482282-18482301 None:intergenic 35.0%
AGCTAAGCTTGTATACCTTT+CGG - chr1.3:18482253-18482272 None:intergenic 35.0%
AGTATATGTTGGAACCTACT+TGG - chr1.3:18481900-18481919 None:intergenic 35.0%
CACAACTTCTTGTCTTACTA+AGG + chr1.3:18481957-18481976 MS.gene95366:CDS 35.0%
CTTAGTAAGACAAGAAGTTG+TGG - chr1.3:18481959-18481978 None:intergenic 35.0%
GAAGACTCCAAATTTGAACT+TGG + chr1.3:18481846-18481865 MS.gene95366:CDS 35.0%
GACATCAGAATGCTCATAAA+AGG + chr1.3:18482184-18482203 MS.gene95366:CDS 35.0%
GAGAAAACTCTATGAATCGT+TGG - chr1.3:18482117-18482136 None:intergenic 35.0%
TAAAGCCTCAAAGTAAGATC+AGG - chr1.3:18482591-18482610 None:intergenic 35.0%
TCAGCTTCCAAGTTCAAATT+TGG - chr1.3:18481856-18481875 None:intergenic 35.0%
TTAGCTTCTTTACCTCTTCA+TGG + chr1.3:18482267-18482286 MS.gene95366:CDS 35.0%
! CTTCTTCTTTTCATCCTCTT+GGG + chr1.3:18482292-18482311 MS.gene95366:CDS 35.0%
! GACACTAATAGTGAAGTACT+AGG + chr1.3:18482060-18482079 MS.gene95366:CDS 35.0%
! TAGGTAGTAGATGTTTGTTG+AGG - chr1.3:18482567-18482586 None:intergenic 35.0%
! TCTTCTTCTTTTCATCCTCT+TGG + chr1.3:18482291-18482310 MS.gene95366:CDS 35.0%
AACTCTATGAATCGTTGGTG+CGG - chr1.3:18482112-18482131 None:intergenic 40.0%
AAGTAGGGATGTTTACCGAA+AGG + chr1.3:18482235-18482254 MS.gene95366:CDS 40.0%
CCTATCCTGATCTTACTTTG+AGG + chr1.3:18482583-18482602 MS.gene95366:CDS 40.0%
CCTCAAAGTAAGATCAGGAT+AGG - chr1.3:18482586-18482605 None:intergenic 40.0%
TCATAAAAGGGAGAGAACGA+TGG + chr1.3:18482197-18482216 MS.gene95366:CDS 40.0%
TCCTTCAAATCTTCATCGCT+CGG - chr1.3:18482033-18482052 None:intergenic 40.0%
TTAGAAGTAAGCAGCCAAGT+AGG + chr1.3:18481883-18481902 MS.gene95366:CDS 40.0%
TTTATCTGCCTGAAACTTCC+AGG - chr1.3:18482474-18482493 None:intergenic 40.0%
! ATGAAGATGTCGGCGTATTT+TGG + chr1.3:18482448-18482467 MS.gene95366:CDS 40.0%
! GTAGTAGATGTTTGTTGAGG+AGG - chr1.3:18482564-18482583 None:intergenic 40.0%
! TTCTTTAGCTCACAAGCGTT+AGG + chr1.3:18482159-18482178 MS.gene95366:CDS 40.0%
!! ACGATGATGGCATATGGTTT+TGG - chr1.3:18482341-18482360 None:intergenic 40.0%
!!! TATTTTGGCCTGGAAGTTTC+AGG + chr1.3:18482463-18482482 MS.gene95366:CDS 40.0%
ACTAAGGCAGACATCAATCC+AGG + chr1.3:18481973-18481992 MS.gene95366:CDS 45.0%
AGAAGTTGTGGCACTGTCTT+TGG - chr1.3:18481947-18481966 None:intergenic 45.0%
AGGTCAAGGGAAATAGAACC+TGG - chr1.3:18481994-18482013 None:intergenic 45.0%
GAAGTTGAGAGTCAGGTCAA+GGG - chr1.3:18482007-18482026 None:intergenic 45.0%
TCTTTCTCGAATTTCGCTGC+AGG - chr1.3:18482396-18482415 None:intergenic 45.0%
! TTTAGCTCACAAGCGTTAGG+AGG + chr1.3:18482162-18482181 MS.gene95366:CDS 45.0%
ATCGTCGTCGATGCTGATGA+GGG + chr1.3:18482356-18482375 MS.gene95366:CDS 50.0%
CAAAGCGCGCTATGCAAGTA+GGG + chr1.3:18482220-18482239 MS.gene95366:CDS 50.0%
CGAAGTTGAGAGTCAGGTCA+AGG - chr1.3:18482008-18482027 None:intergenic 50.0%
GCATGAGCTTGAATCCCAAG+AGG - chr1.3:18482309-18482328 None:intergenic 50.0%
GCCGAGCGATGAAGATTTGA+AGG + chr1.3:18482029-18482048 MS.gene95366:CDS 50.0%
! TCGACGACGATGATGGCATA+TGG - chr1.3:18482347-18482366 None:intergenic 50.0%
!! ATCAGCATCGACGACGATGA+TGG - chr1.3:18482354-18482373 None:intergenic 50.0%
CATCGTCGTCGATGCTGATG+AGG + chr1.3:18482355-18482374 MS.gene95366:CDS 55.0%
GCAAAGCGCGCTATGCAAGT+AGG + chr1.3:18482219-18482238 MS.gene95366:CDS 55.0%
! TCGGCTCGAAGTTGAGAGTC+AGG - chr1.3:18482014-18482033 None:intergenic 55.0%
!!! GATGTCGGCGTATTTTGGCC+TGG + chr1.3:18482453-18482472 MS.gene95366:CDS 55.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 18481841 18482611 18481841 ID=MS.gene95366
chr1.3 mRNA 18481841 18482611 18481841 ID=MS.gene95366.t1;Parent=MS.gene95366
chr1.3 exon 18481841 18482611 18481841 ID=MS.gene95366.t1.exon1;Parent=MS.gene95366.t1
chr1.3 CDS 18481841 18482611 18481841 ID=cds.MS.gene95366.t1;Parent=MS.gene95366.t1
Gene Sequence

>MS.gene95366

ATGATGAAGACTCCAAATTTGAACTTGGAAGCTGAAAATAGTTTAGAAGTAAGCAGCCAAGTAGGTTCCAACATATACTTACAAGAATCATCTCATGATCTTACCAAAGACAGTGCCACAACTTCTTGTCTTACTAAGGCAGACATCAATCCAGGTTCTATTTCCCTTGACCTGACTCTCAACTTCGAGCCGAGCGATGAAGATTTGAAGGAAACAAGCGACACTAATAGTGAAGTACTAGGAGCTAATCAAGCTCATAATACTGTTTCCGCACCAACGATTCATAGAGTTTTCTCTTGTAATTATTGTAGGAGGAAATTCTTTAGCTCACAAGCGTTAGGAGGACATCAGAATGCTCATAAAAGGGAGAGAACGATGGCAAAGCGCGCTATGCAAGTAGGGATGTTTACCGAAAGGTATACAAGCTTAGCTTCTTTACCTCTTCATGGTTCTTCTTCTTTTCATCCTCTTGGGATTCAAGCTCATGCTGCAATGCACCAAAACCATATGCCATCATCGTCGTCGATGCTGATGAGGGCTCAAAATATGAGACCTGCAGCGAAATTCGAGAAAGATTGTTTTGGAGCAGCACCGATGTTTATGCATAATGAAGATGTCGGCGTATTTTGGCCTGGAAGTTTCAGGCAGATAAATCAAAGTGTTCATAATTCAAATTTGAATCATAACTCAAATTTAAATACTAGTTTTGTAGCAACTGAACCTCCTCAACAAACATCTACTACCTATCCTGATCTTACTTTGAGGCTTTAA
Protein sequence

>MS.gene95366.t1

MMKTPNLNLEAENSLEVSSQVGSNIYLQESSHDLTKDSATTSCLTKADINPGSISLDLTLNFEPSDEDLKETSDTNSEVLGANQAHNTVSAPTIHRVFSCNYCRRKFFSSQALGGHQNAHKRERTMAKRAMQVGMFTERYTSLASLPLHGSSSFHPLGIQAHAAMHQNHMPSSSSMLMRAQNMRPAAKFEKDCFGAAPMFMHNEDVGVFWPGSFRQINQSVHNSNLNHNSNLNTSFVATEPPQQTSTTYPDLTLRL