AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene065709

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene065709.t1 AT3G44260 61.232 276 95 4 10 281 11 278 3.80e-114 330
MS.gene065709.t1 AT5G22250 61.993 271 92 5 16 281 12 276 1.35e-113 328
MS.gene065709.t1 AT2G32070 54.478 268 110 5 15 280 9 266 2.34e-96 285
MS.gene065709.t1 AT5G10960 55.431 267 108 5 15 280 9 265 5.93e-96 284
MS.gene065709.t1 AT1G80780 55.056 267 109 5 15 280 9 265 2.14e-93 277
MS.gene065709.t1 AT1G80780 55.056 267 109 5 15 280 9 265 2.14e-93 277
MS.gene065709.t1 AT1G80780 55.056 267 109 5 15 280 9 265 2.94e-93 277
MS.gene065709.t1 AT1G15920 50.000 270 128 5 15 282 13 277 2.52e-85 257
MS.gene065709.t1 AT1G15920 50.000 270 128 5 15 282 13 277 2.52e-85 257
MS.gene065709.t1 AT1G06450 34.082 267 149 8 19 280 10 254 2.10e-40 144
MS.gene065709.t1 AT1G61470 37.860 243 127 8 21 258 5 228 4.29e-38 135
MS.gene065709.t1 AT1G27820 37.052 251 132 9 15 258 3 234 1.50e-35 130
MS.gene065709.t1 AT3G44240 36.245 229 128 6 32 258 3 215 7.79e-32 118
MS.gene065709.t1 AT1G27890 36.929 241 134 6 21 258 4 229 1.72e-31 119

Find 69 sgRNAs with CRISPR-Local

Find 80 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGATGAGCTTGCTGAGTTTC+TGG 0.128109 1.2:-45674426 MS.gene065709:CDS
CGGATATGATTTCGGATATT+TGG 0.138980 1.2:-45674477 MS.gene065709:CDS
TTCGAGAAGAATAAGGAATT+TGG 0.145623 1.2:-45674584 MS.gene065709:CDS
TAGAAAAGGAGTTTCTAATT+TGG 0.187567 1.2:-45674691 MS.gene065709:CDS
AGAAAAGGAGTTTCTAATTT+GGG 0.265038 1.2:-45674690 MS.gene065709:CDS
CTGAGTTTCTGGTGCTGGTT+AGG 0.266063 1.2:-45674415 MS.gene065709:CDS
GATTGATTTCGAGAAGAATA+AGG 0.314226 1.2:-45674591 MS.gene065709:CDS
TGAAGGGTTGTATGGTGGTT+TGG 0.322783 1.2:-45674342 MS.gene065709:CDS
TCGAGAAGAATAAGGAATTT+GGG 0.324006 1.2:-45674583 MS.gene065709:CDS
TTTCATAGCGGATATGATTT+CGG 0.332804 1.2:-45674485 MS.gene065709:CDS
GCTGAATTGATGATGAGTTC+TGG 0.333632 1.2:-45674542 MS.gene065709:CDS
CTGAATGTGGATCGTGTTGC+TGG 0.372479 1.2:-45674302 MS.gene065709:CDS
GACGACAACGCCGGGAAATT+CGG 0.381247 1.2:+45674856 None:intergenic
AATTGAATTGCTGAAGAGTC+AGG 0.384892 1.2:-45674615 MS.gene065709:CDS
GATAAGTCGGTGATGCCGTC+AGG 0.408072 1.2:+45674830 None:intergenic
AGAAACTCAGCAAGCTCATC+AGG 0.412221 1.2:+45674428 None:intergenic
AGATTAAGGAAGTTCACTTT+GGG 0.421931 1.2:-45674226 MS.gene065709:CDS
GCTTGCTGAGTTTCTGGTGC+TGG 0.433612 1.2:-45674420 MS.gene065709:CDS
AAGATTAAGGAAGTTCACTT+TGG 0.442516 1.2:-45674227 MS.gene065709:CDS
TGAGTTTCTGGTGCTGGTTA+GGG 0.447849 1.2:-45674414 MS.gene065709:CDS
AAGTATGCTGGTGTGTTGTA+TGG 0.453388 1.2:-45674182 MS.gene065709:CDS
TGTGTAATGAGGAGGTTAGC+TGG 0.455691 1.2:-45674514 MS.gene065709:CDS
GGCGTTGTCGTCCGCCCTGA+CGG 0.458271 1.2:-45674845 MS.gene065709:CDS
ACCGGTCGGATTGAGATTGA+TGG 0.470117 1.2:+45674956 None:intergenic
AGGAATTTGGGATTGACTCA+TGG 0.472026 1.2:-45674571 MS.gene065709:CDS
ATGGTGGTTTGGATAGAGTT+GGG 0.481050 1.2:-45674331 MS.gene065709:CDS
TCAGGGCGGACGACAACGCC+GGG 0.482357 1.2:+45674848 None:intergenic
TCAATGGACACCGAATTTCC+CGG 0.485725 1.2:-45674866 MS.gene065709:CDS
TGTTTATGATGTGAAGCATT+TGG 0.488890 1.2:-45674375 MS.gene065709:CDS
CTGGGAAGAGTCATCAGGCT+GGG 0.498125 1.2:-45674283 MS.gene065709:CDS
CTGATAAAGTGAGACCAACT+TGG 0.500178 1.2:+45674738 None:intergenic
TAACCTTCCGAAATTAGAAA+AGG 0.506679 1.2:-45674705 MS.gene065709:CDS
GCTGGGAAGAGTCATCAGGC+TGG 0.512555 1.2:-45674284 MS.gene065709:CDS
GTCCTCAAGGCGAATGTCGA+CGG 0.520336 1.2:-45674773 MS.gene065709:CDS
TGTTGCTGGGAAGAGTCATC+AGG 0.533863 1.2:-45674288 MS.gene065709:CDS
ATTGAGATTGATGGAGCGTA+GGG 0.534551 1.2:+45674965 None:intergenic
GACCGTCGACATTCGCCTTG+AGG 0.535332 1.2:+45674771 None:intergenic
TTCACATCCGATCATCTCAA+TGG 0.540047 1.2:-45674882 MS.gene065709:CDS
TATGGTGGTTTGGATAGAGT+TGG 0.541004 1.2:-45674332 MS.gene065709:CDS
AGGACGGAGTAATGAGTGGC+AGG 0.543146 1.2:+45674791 None:intergenic
GTCAGGGCGGACGACAACGC+CGG 0.547017 1.2:+45674847 None:intergenic
GATTGAGATTGATGGAGCGT+AGG 0.549476 1.2:+45674964 None:intergenic
GTGTAATGAGGAGGTTAGCT+GGG 0.552375 1.2:-45674513 MS.gene065709:CDS
TAATTTCGGAAGGTTACCCT+CGG 0.571733 1.2:+45674712 None:intergenic
AATGAGTGGCAGGTGTTCGA+TGG 0.574179 1.2:+45674801 None:intergenic
GTTGTATGGATTAGAAAATG+TGG 0.574852 1.2:-45674168 MS.gene065709:CDS
CACTCATTACTCCGTCCTCA+AGG 0.577080 1.2:-45674786 MS.gene065709:CDS
ATTGAATTGCTGAAGAGTCA+GGG 0.581241 1.2:-45674614 MS.gene065709:CDS
AGTTGGGAAGACGCTGAATG+TGG 0.590046 1.2:-45674315 MS.gene065709:CDS
TCCATCAATCTCAATCCGAC+CGG 0.592312 1.2:-45674957 MS.gene065709:CDS
GTCGACATTCGCCTTGAGGA+CGG 0.603932 1.2:+45674775 None:intergenic
GGTCTTAATCTCATCCAAGT+TGG 0.608054 1.2:-45674752 MS.gene065709:CDS
TCTCACTTTATCAGATGCCG+AGG 0.613235 1.2:-45674729 MS.gene065709:CDS
TGAATGTGGATCGTGTTGCT+GGG 0.618716 1.2:-45674301 MS.gene065709:CDS
GATTGAATGACCACACCGGT+CGG 0.621202 1.2:+45674942 None:intergenic
TTCTGGACTTGTGTGTAATG+AGG 0.621770 1.2:-45674525 MS.gene065709:CDS
GATCGATTGATGAAGTATGC+TGG 0.628077 1.2:-45674194 MS.gene065709:CDS
ATAAGTCGGTGATGCCGTCA+GGG 0.629413 1.2:+45674831 None:intergenic
TTGAATTGCTGAAGAGTCAG+GGG 0.634045 1.2:-45674613 MS.gene065709:CDS
TGGACTTGTGTGTAATGAGG+AGG 0.634444 1.2:-45674522 MS.gene065709:CDS
TCGGTGTCCATTGAGATGAT+CGG 0.640764 1.2:+45674875 None:intergenic
CTTGAGGACGGAGTAATGAG+TGG 0.656338 1.2:+45674787 None:intergenic
TCGATGGTAAGATGATAAGT+CGG 0.675215 1.2:+45674817 None:intergenic
CAATCTCAATCCGACCGGTG+TGG 0.685580 1.2:-45674952 MS.gene065709:CDS
CTCACTTTATCAGATGCCGA+GGG 0.688262 1.2:-45674728 MS.gene065709:CDS
GATGTGAATCAACGAAAGAG+CGG 0.694715 1.2:+45674897 None:intergenic
AGTCGGTGATGCCGTCAGGG+CGG 0.706791 1.2:+45674834 None:intergenic
AGCTGGGTGACATTTCATAG+CGG 0.756943 1.2:-45674497 MS.gene065709:CDS
TCGAGATTGAATGACCACAC+CGG 0.757455 1.2:+45674938 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AGAAAAGGAGTTTCTAATTT+GGG - chr1.2:45674468-45674487 MS.gene065709:CDS 25.0%
! TAGAAAAGGAGTTTCTAATT+TGG - chr1.2:45674467-45674486 MS.gene065709:CDS 25.0%
!! AGAAACTCCTTTTCTAATTT+CGG + chr1.2:45674463-45674482 None:intergenic 25.0%
AAGATTAAGGAAGTTCACTT+TGG - chr1.2:45674931-45674950 MS.gene065709:CDS 30.0%
AGATTAAGGAAGTTCACTTT+GGG - chr1.2:45674932-45674951 MS.gene065709:CDS 30.0%
TAACCTTCCGAAATTAGAAA+AGG - chr1.2:45674453-45674472 MS.gene065709:CDS 30.0%
TCGAGAAGAATAAGGAATTT+GGG - chr1.2:45674575-45674594 MS.gene065709:CDS 30.0%
TTCGAGAAGAATAAGGAATT+TGG - chr1.2:45674574-45674593 MS.gene065709:CDS 30.0%
! GATTGATTTCGAGAAGAATA+AGG - chr1.2:45674567-45674586 MS.gene065709:CDS 30.0%
! TGTTTATGATGTGAAGCATT+TGG - chr1.2:45674783-45674802 MS.gene065709:CDS 30.0%
!! ATTTGGTGAAGTTTTGTGAA+GGG - chr1.2:45674800-45674819 MS.gene065709:CDS 30.0%
!! GTTGTATGGATTAGAAAATG+TGG - chr1.2:45674990-45675009 MS.gene065709:CDS 30.0%
!! TCATGCTTTTAGGAAGATTA+AGG - chr1.2:45674918-45674937 MS.gene065709:CDS 30.0%
!! TTTCATAGCGGATATGATTT+CGG - chr1.2:45674673-45674692 MS.gene065709:CDS 30.0%
AATTGAATTGCTGAAGAGTC+AGG - chr1.2:45674543-45674562 MS.gene065709:CDS 35.0%
ATTGAATTGCTGAAGAGTCA+GGG - chr1.2:45674544-45674563 MS.gene065709:CDS 35.0%
CGGATATGATTTCGGATATT+TGG - chr1.2:45674681-45674700 MS.gene065709:CDS 35.0%
TCGATGGTAAGATGATAAGT+CGG + chr1.2:45674344-45674363 None:intergenic 35.0%
! ACTCCTTTTCTAATTTCGGA+AGG + chr1.2:45674459-45674478 None:intergenic 35.0%
!! AAGTTTTGTGAAGGGTTGTA+TGG - chr1.2:45674808-45674827 MS.gene065709:CDS 35.0%
!! CATTTGGTGAAGTTTTGTGA+AGG - chr1.2:45674799-45674818 MS.gene065709:CDS 35.0%
AAGTATGCTGGTGTGTTGTA+TGG - chr1.2:45674976-45674995 MS.gene065709:CDS 40.0%
ATTGAGATTGATGGAGCGTA+GGG + chr1.2:45674196-45674215 None:intergenic 40.0%
CTGATAAAGTGAGACCAACT+TGG + chr1.2:45674423-45674442 None:intergenic 40.0%
GATCGATTGATGAAGTATGC+TGG - chr1.2:45674964-45674983 MS.gene065709:CDS 40.0%
GATGTGAATCAACGAAAGAG+CGG + chr1.2:45674264-45674283 None:intergenic 40.0%
GGTCTTAATCTCATCCAAGT+TGG - chr1.2:45674406-45674425 MS.gene065709:CDS 40.0%
TAATTTCGGAAGGTTACCCT+CGG + chr1.2:45674449-45674468 None:intergenic 40.0%
TTCACATCCGATCATCTCAA+TGG - chr1.2:45674276-45674295 MS.gene065709:CDS 40.0%
TTCTGGACTTGTGTGTAATG+AGG - chr1.2:45674633-45674652 MS.gene065709:CDS 40.0%
TTGAATTGCTGAAGAGTCAG+GGG - chr1.2:45674545-45674564 MS.gene065709:CDS 40.0%
! AGGAATTTGGGATTGACTCA+TGG - chr1.2:45674587-45674606 MS.gene065709:CDS 40.0%
! ATGGTGGTTTGGATAGAGTT+GGG - chr1.2:45674827-45674846 MS.gene065709:CDS 40.0%
! TATGGTGGTTTGGATAGAGT+TGG - chr1.2:45674826-45674845 MS.gene065709:CDS 40.0%
! TTTTGTGAAGGGTTGTATGG+TGG - chr1.2:45674811-45674830 MS.gene065709:CDS 40.0%
!! GCTGAATTGATGATGAGTTC+TGG - chr1.2:45674616-45674635 MS.gene065709:CDS 40.0%
!! TGCTGGTTAGGGTTTTCTTT+GGG - chr1.2:45674755-45674774 MS.gene065709:CDS 40.0%
!!! TGCTGACTCTTCATGCTTTT+AGG - chr1.2:45674908-45674927 MS.gene065709:CDS 40.0%
AGAAACTCAGCAAGCTCATC+AGG + chr1.2:45674733-45674752 None:intergenic 45.0%
AGCTGGGTGACATTTCATAG+CGG - chr1.2:45674661-45674680 MS.gene065709:CDS 45.0%
CTCACTTTATCAGATGCCGA+GGG - chr1.2:45674430-45674449 MS.gene065709:CDS 45.0%
GATTGAGATTGATGGAGCGT+AGG + chr1.2:45674197-45674216 None:intergenic 45.0%
TCAATGGACACCGAATTTCC+CGG - chr1.2:45674292-45674311 MS.gene065709:CDS 45.0%
TCCATCAATCTCAATCCGAC+CGG - chr1.2:45674201-45674220 MS.gene065709:CDS 45.0%
TCGAGATTGAATGACCACAC+CGG + chr1.2:45674223-45674242 None:intergenic 45.0%
TCTCACTTTATCAGATGCCG+AGG - chr1.2:45674429-45674448 MS.gene065709:CDS 45.0%
TGAAGGGTTGTATGGTGGTT+TGG - chr1.2:45674816-45674835 MS.gene065709:CDS 45.0%
TGGACTTGTGTGTAATGAGG+AGG - chr1.2:45674636-45674655 MS.gene065709:CDS 45.0%
TGTGTAATGAGGAGGTTAGC+TGG - chr1.2:45674644-45674663 MS.gene065709:CDS 45.0%
! GCTGGTTAGGGTTTTCTTTG+GGG - chr1.2:45674756-45674775 MS.gene065709:CDS 45.0%
! GTGTAATGAGGAGGTTAGCT+GGG - chr1.2:45674645-45674664 MS.gene065709:CDS 45.0%
! TCGGTGTCCATTGAGATGAT+CGG + chr1.2:45674286-45674305 None:intergenic 45.0%
! TGAATGTGGATCGTGTTGCT+GGG - chr1.2:45674857-45674876 MS.gene065709:CDS 45.0%
!! TGAGTTTCTGGTGCTGGTTA+GGG - chr1.2:45674744-45674763 MS.gene065709:CDS 45.0%
!! TGATGAGCTTGCTGAGTTTC+TGG - chr1.2:45674732-45674751 MS.gene065709:CDS 45.0%
!!! GTGCTGGTTAGGGTTTTCTT+TGG - chr1.2:45674754-45674773 MS.gene065709:CDS 45.0%
AATGAGTGGCAGGTGTTCGA+TGG + chr1.2:45674360-45674379 None:intergenic 50.0%
ACCGGTCGGATTGAGATTGA+TGG + chr1.2:45674205-45674224 None:intergenic 50.0%
AGTTGGGAAGACGCTGAATG+TGG - chr1.2:45674843-45674862 MS.gene065709:CDS 50.0%
ATAAGTCGGTGATGCCGTCA+GGG + chr1.2:45674330-45674349 None:intergenic 50.0%
CACTCATTACTCCGTCCTCA+AGG - chr1.2:45674372-45674391 MS.gene065709:CDS 50.0%
CTGAATGTGGATCGTGTTGC+TGG - chr1.2:45674856-45674875 MS.gene065709:CDS 50.0%
CTTGAGGACGGAGTAATGAG+TGG + chr1.2:45674374-45674393 None:intergenic 50.0%
GATTGAATGACCACACCGGT+CGG + chr1.2:45674219-45674238 None:intergenic 50.0%
TGTTGCTGGGAAGAGTCATC+AGG - chr1.2:45674870-45674889 MS.gene065709:CDS 50.0%
!! CTGAGTTTCTGGTGCTGGTT+AGG - chr1.2:45674743-45674762 MS.gene065709:CDS 50.0%
AGGACGGAGTAATGAGTGGC+AGG + chr1.2:45674370-45674389 None:intergenic 55.0%
CAATCTCAATCCGACCGGTG+TGG - chr1.2:45674206-45674225 MS.gene065709:CDS 55.0%
CTGGGAAGAGTCATCAGGCT+GGG - chr1.2:45674875-45674894 MS.gene065709:CDS 55.0%
GACGACAACGCCGGGAAATT+CGG + chr1.2:45674305-45674324 None:intergenic 55.0%
GATAAGTCGGTGATGCCGTC+AGG + chr1.2:45674331-45674350 None:intergenic 55.0%
GTCCTCAAGGCGAATGTCGA+CGG - chr1.2:45674385-45674404 MS.gene065709:CDS 55.0%
GTCGACATTCGCCTTGAGGA+CGG + chr1.2:45674386-45674405 None:intergenic 55.0%
!! GCTTGCTGAGTTTCTGGTGC+TGG - chr1.2:45674738-45674757 MS.gene065709:CDS 55.0%
GACCGTCGACATTCGCCTTG+AGG + chr1.2:45674390-45674409 None:intergenic 60.0%
GCTGGGAAGAGTCATCAGGC+TGG - chr1.2:45674874-45674893 MS.gene065709:CDS 60.0%
AGTCGGTGATGCCGTCAGGG+CGG + chr1.2:45674327-45674346 None:intergenic 65.0%
GGCGTTGTCGTCCGCCCTGA+CGG - chr1.2:45674313-45674332 MS.gene065709:CDS 70.0%
GTCAGGGCGGACGACAACGC+CGG + chr1.2:45674314-45674333 None:intergenic 70.0%
TCAGGGCGGACGACAACGCC+GGG + chr1.2:45674313-45674332 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 45674163 45675017 45674163 ID=MS.gene065709
chr1.2 mRNA 45674163 45675017 45674163 ID=MS.gene065709.t1;Parent=MS.gene065709
chr1.2 exon 45674163 45675017 45674163 ID=MS.gene065709.t1.exon1;Parent=MS.gene065709.t1
chr1.2 CDS 45674163 45675017 45674163 ID=cds.MS.gene065709.t1;Parent=MS.gene065709.t1
Gene Sequence

>MS.gene065709

ATGTTCACACAAAGCATGTTCATCGCAAAACCCTACGCTCCATCAATCTCAATCCGACCGGTGTGGTCATTCAATCTCGAATCAGAGTTCAAACTCATCCGCTCTTTCGTTGATTCACATCCGATCATCTCAATGGACACCGAATTTCCCGGCGTTGTCGTCCGCCCTGACGGCATCACCGACTTATCATCTTACCATCGAACACCTGCCACTCATTACTCCGTCCTCAAGGCGAATGTCGACGGTCTTAATCTCATCCAAGTTGGTCTCACTTTATCAGATGCCGAGGGTAACCTTCCGAAATTAGAAAAGGAGTTTCTAATTTGGGAATTTAATTTCAGTGATTTTGATGTTGCACGTGATAATCACGCGCACGAGTCAATTGAATTGCTGAAGAGTCAGGGGATTGATTTCGAGAAGAATAAGGAATTTGGGATTGACTCATGGAAATTTGCTGAATTGATGATGAGTTCTGGACTTGTGTGTAATGAGGAGGTTAGCTGGGTGACATTTCATAGCGGATATGATTTCGGATATTTGGTGAAAGCGTTGACGCAGAGAGCTTTGCCTGATGAGCTTGCTGAGTTTCTGGTGCTGGTTAGGGTTTTCTTTGGGGAGAGTGTTTATGATGTGAAGCATTTGGTGAAGTTTTGTGAAGGGTTGTATGGTGGTTTGGATAGAGTTGGGAAGACGCTGAATGTGGATCGTGTTGCTGGGAAGAGTCATCAGGCTGGGTCTGATAGTTTGCTGACTCTTCATGCTTTTAGGAAGATTAAGGAAGTTCACTTTGGGAATGATGTTGATCGATTGATGAAGTATGCTGGTGTGTTGTATGGATTAGAAAATGTGGTTTAA
Protein sequence

>MS.gene065709.t1

MFTQSMFIAKPYAPSISIRPVWSFNLESEFKLIRSFVDSHPIISMDTEFPGVVVRPDGITDLSSYHRTPATHYSVLKANVDGLNLIQVGLTLSDAEGNLPKLEKEFLIWEFNFSDFDVARDNHAHESIELLKSQGIDFEKNKEFGIDSWKFAELMMSSGLVCNEEVSWVTFHSGYDFGYLVKALTQRALPDELAEFLVLVRVFFGESVYDVKHLVKFCEGLYGGLDRVGKTLNVDRVAGKSHQAGSDSLLTLHAFRKIKEVHFGNDVDRLMKYAGVLYGLENVV