AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene72977

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.gene72977.t1 AT3G44260 61.232 276 95 4 10 281 11 278 3.80e-114 330
MS.gene72977.t1 AT5G22250 61.993 271 92 5 16 281 12 276 1.35e-113 328
MS.gene72977.t1 AT2G32070 54.478 268 110 5 15 280 9 266 2.34e-96 285
MS.gene72977.t1 AT5G10960 55.431 267 108 5 15 280 9 265 5.93e-96 284
MS.gene72977.t1 AT1G80780 55.056 267 109 5 15 280 9 265 2.14e-93 277
MS.gene72977.t1 AT1G80780 55.056 267 109 5 15 280 9 265 2.14e-93 277
MS.gene72977.t1 AT1G80780 55.056 267 109 5 15 280 9 265 2.94e-93 277
MS.gene72977.t1 AT1G15920 50.000 270 128 5 15 282 13 277 2.52e-85 257
MS.gene72977.t1 AT1G15920 50.000 270 128 5 15 282 13 277 2.52e-85 257
MS.gene72977.t1 AT1G06450 34.082 267 149 8 19 280 10 254 2.10e-40 144
MS.gene72977.t1 AT1G61470 37.860 243 127 8 21 258 5 228 4.29e-38 135
MS.gene72977.t1 AT1G27820 37.052 251 132 9 15 258 3 234 1.50e-35 130
MS.gene72977.t1 AT3G44240 36.245 229 128 6 32 258 3 215 7.79e-32 118
MS.gene72977.t1 AT1G27890 36.929 241 134 6 21 258 4 229 1.72e-31 119

Find 75 sgRNAs with CRISPR-Local

Find 82 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGATGAGCTTGCTGAGTTTC+TGG 0.128109 1.1:-45201656 MS.gene72977:CDS
CGGTTATGATTTCGGATATT+TGG 0.177802 1.1:-45201707 MS.gene72977:CDS
TTCGAGAAGAATAAGGAATT+TGG 0.180868 1.1:-45201814 MS.gene72977:CDS
TAGAAAAGGAGTTTCTAATT+TGG 0.187567 1.1:-45201921 MS.gene72977:CDS
AGAAAAGGAGTTTCTAATTT+GGG 0.265038 1.1:-45201920 MS.gene72977:CDS
CTGAGTTTCTGGTGCTGGTT+AGG 0.266063 1.1:-45201645 MS.gene72977:CDS
TTTCATAGCGGTTATGATTT+CGG 0.281368 1.1:-45201715 MS.gene72977:CDS
GATTGATTTCGAGAAGAATA+AGG 0.314226 1.1:-45201821 MS.gene72977:CDS
GCTGAATTGATGATGAGTTC+TGG 0.333632 1.1:-45201772 MS.gene72977:CDS
CTGAATGTGGATCGTGTTGC+TGG 0.372479 1.1:-45201532 MS.gene72977:CDS
GACGACAACGCCGGGAAATT+CGG 0.381247 1.1:+45202086 None:intergenic
AATTGAATTGCTGAAGAGTC+AGG 0.384892 1.1:-45201845 MS.gene72977:CDS
TGAAGGGTTGTATGGTGGTT+TGG 0.394664 1.1:-45201572 MS.gene72977:CDS
GATAAGTCGGTGATGCCGTC+AGG 0.408072 1.1:+45202060 None:intergenic
AGGACGGAGTAATGAGTTGC+AGG 0.410167 1.1:+45202021 None:intergenic
AGAAACTCAGCAAGCTCATC+AGG 0.412221 1.1:+45201658 None:intergenic
AGATTAAGGAAGTTCACTTT+GGG 0.421931 1.1:-45201456 MS.gene72977:CDS
GCTTGCTGAGTTTCTGGTGC+TGG 0.433612 1.1:-45201650 MS.gene72977:CDS
AAGATTAAGGAAGTTCACTT+TGG 0.442516 1.1:-45201457 MS.gene72977:CDS
TGAGTTTCTGGTGCTGGTTA+GGG 0.447849 1.1:-45201644 MS.gene72977:CDS
GTCCTCAAGGCGAATGTCGA+CGG 0.449587 1.1:-45202003 MS.gene72977:CDS
AAGTATGCTGGTGTGTTGTA+TGG 0.453388 1.1:-45201412 MS.gene72977:CDS
TGTGTAATGAGGAGGTTAGC+TGG 0.455691 1.1:-45201744 MS.gene72977:CDS
GGCGTTGTCGTCCGCCCTGA+CGG 0.458271 1.1:-45202075 MS.gene72977:CDS
ACCGGTCGGATTGAGATTGA+TGG 0.470117 1.1:+45202186 None:intergenic
ATGGTGGTTTGGATAGAGTT+GGG 0.481050 1.1:-45201561 MS.gene72977:CDS
TCAGGGCGGACGACAACGCC+GGG 0.482357 1.1:+45202078 None:intergenic
CGGATAAAGTGAGACCAACT+TGG 0.483415 1.1:+45201968 None:intergenic
TCAATGGACACCGAATTTCC+CGG 0.485725 1.1:-45202096 MS.gene72977:CDS
AAGTTCTGTGAAGGGTTGTA+TGG 0.485813 1.1:-45201580 MS.gene72977:CDS
TGTTTATGATGTGAAGCATT+TGG 0.488890 1.1:-45201605 MS.gene72977:CDS
AGGAATTTGGAATTGACTCA+TGG 0.492507 1.1:-45201801 MS.gene72977:CDS
CGGAAGGTTACCCTCGGCAT+CGG 0.497698 1.1:+45201948 None:intergenic
TTCTGTGAAGGGTTGTATGG+TGG 0.506593 1.1:-45201577 MS.gene72977:CDS
TAACCTTCCGAAATTAGAAA+AGG 0.506679 1.1:-45201935 MS.gene72977:CDS
TCCTCAAGGCGAATGTCGAC+GGG 0.507053 1.1:-45202002 MS.gene72977:CDS
AGTAATGAGTTGCAGGTGTT+CGG 0.510942 1.1:+45202028 None:intergenic
TGTTGCTGGGAAGAGTCATC+AGG 0.532609 1.1:-45201518 MS.gene72977:CDS
ATTGAGATTGATGGAGCGTA+GGG 0.534551 1.1:+45202195 None:intergenic
TTCACATCCGATCATCTCAA+TGG 0.540047 1.1:-45202112 MS.gene72977:CDS
TATGGTGGTTTGGATAGAGT+TGG 0.541004 1.1:-45201562 MS.gene72977:CDS
CATTTGGTGAAGTTCTGTGA+AGG 0.546612 1.1:-45201589 MS.gene72977:CDS
GTCAGGGCGGACGACAACGC+CGG 0.547017 1.1:+45202077 None:intergenic
GATTGAGATTGATGGAGCGT+AGG 0.549476 1.1:+45202194 None:intergenic
GTGTAATGAGGAGGTTAGCT+GGG 0.552375 1.1:-45201743 MS.gene72977:CDS
GTCGACATTCGCCTTGAGGA+CGG 0.562994 1.1:+45202005 None:intergenic
GCCCGTCGACATTCGCCTTG+AGG 0.563208 1.1:+45202001 None:intergenic
TAATTTCGGAAGGTTACCCT+CGG 0.571733 1.1:+45201942 None:intergenic
GTTGTATGGATTAGAAAATG+TGG 0.574852 1.1:-45201398 MS.gene72977:CDS
GCTGGGAAGAGTCATCAGGC+GGG 0.579238 1.1:-45201514 MS.gene72977:CDS
ATTGAATTGCTGAAGAGTCA+GGG 0.581241 1.1:-45201844 MS.gene72977:CDS
TCTCACTTTATCCGATGCCG+AGG 0.585072 1.1:-45201959 MS.gene72977:CDS
AGTTGGGAAGACGCTGAATG+TGG 0.590046 1.1:-45201545 MS.gene72977:CDS
TCCATCAATCTCAATCCGAC+CGG 0.592312 1.1:-45202187 MS.gene72977:CDS
GGGCTTAATCTCATCCAAGT+TGG 0.593236 1.1:-45201982 MS.gene72977:CDS
AACTCATTACTCCGTCCTCA+AGG 0.593706 1.1:-45202016 MS.gene72977:CDS
TGCTGGGAAGAGTCATCAGG+CGG 0.596541 1.1:-45201515 MS.gene72977:CDS
TGAATGTGGATCGTGTTGCT+GGG 0.618716 1.1:-45201531 MS.gene72977:CDS
AATGAGTTGCAGGTGTTCGG+TGG 0.620595 1.1:+45202031 None:intergenic
GATTGAATGACCACACCGGT+CGG 0.621202 1.1:+45202172 None:intergenic
TTCTGGACTTGTGTGTAATG+AGG 0.621770 1.1:-45201755 MS.gene72977:CDS
GATCGATTGATGAAGTATGC+TGG 0.628077 1.1:-45201424 MS.gene72977:CDS
ATAAGTCGGTGATGCCGTCA+GGG 0.629413 1.1:+45202061 None:intergenic
TTGAATTGCTGAAGAGTCAG+GGG 0.634045 1.1:-45201843 MS.gene72977:CDS
TGGACTTGTGTGTAATGAGG+AGG 0.634444 1.1:-45201752 MS.gene72977:CDS
TCGGTGTCCATTGAGATGAT+CGG 0.640764 1.1:+45202105 None:intergenic
ATTTGGTGAAGTTCTGTGAA+GGG 0.644448 1.1:-45201588 MS.gene72977:CDS
CTCACTTTATCCGATGCCGA+GGG 0.652914 1.1:-45201958 MS.gene72977:CDS
CTGGGAAGAGTCATCAGGCG+GGG 0.659464 1.1:-45201513 MS.gene72977:CDS
CAATCTCAATCCGACCGGTG+TGG 0.685580 1.1:-45202182 MS.gene72977:CDS
TCGGTGGTAAGATGATAAGT+CGG 0.692107 1.1:+45202047 None:intergenic
GATGTGAATCAACGAAAGAG+CGG 0.694715 1.1:+45202127 None:intergenic
AGTCGGTGATGCCGTCAGGG+CGG 0.706791 1.1:+45202064 None:intergenic
AGCTGGGTGACATTTCATAG+CGG 0.736884 1.1:-45201727 MS.gene72977:CDS
TCGAGATTGAATGACCACAC+CGG 0.757455 1.1:+45202168 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AGAAAAGGAGTTTCTAATTT+GGG - chr1.1:45201698-45201717 MS.gene72977:CDS 25.0%
! TAGAAAAGGAGTTTCTAATT+TGG - chr1.1:45201697-45201716 MS.gene72977:CDS 25.0%
!! AGAAACTCCTTTTCTAATTT+CGG + chr1.1:45201693-45201712 None:intergenic 25.0%
AAGATTAAGGAAGTTCACTT+TGG - chr1.1:45202161-45202180 MS.gene72977:CDS 30.0%
AGATTAAGGAAGTTCACTTT+GGG - chr1.1:45202162-45202181 MS.gene72977:CDS 30.0%
TAACCTTCCGAAATTAGAAA+AGG - chr1.1:45201683-45201702 MS.gene72977:CDS 30.0%
TTCGAGAAGAATAAGGAATT+TGG - chr1.1:45201804-45201823 MS.gene72977:CDS 30.0%
TTTCATAGCGGTTATGATTT+CGG - chr1.1:45201903-45201922 MS.gene72977:CDS 30.0%
! GATTGATTTCGAGAAGAATA+AGG - chr1.1:45201797-45201816 MS.gene72977:CDS 30.0%
! TGTTTATGATGTGAAGCATT+TGG - chr1.1:45202013-45202032 MS.gene72977:CDS 30.0%
!! GTTGTATGGATTAGAAAATG+TGG - chr1.1:45202220-45202239 MS.gene72977:CDS 30.0%
!! TCATGCTTTTAGGAAGATTA+AGG - chr1.1:45202148-45202167 MS.gene72977:CDS 30.0%
AATTGAATTGCTGAAGAGTC+AGG - chr1.1:45201773-45201792 MS.gene72977:CDS 35.0%
ATTGAATTGCTGAAGAGTCA+GGG - chr1.1:45201774-45201793 MS.gene72977:CDS 35.0%
CGGTTATGATTTCGGATATT+TGG - chr1.1:45201911-45201930 MS.gene72977:CDS 35.0%
! ACTCCTTTTCTAATTTCGGA+AGG + chr1.1:45201689-45201708 None:intergenic 35.0%
! AGGAATTTGGAATTGACTCA+TGG - chr1.1:45201817-45201836 MS.gene72977:CDS 35.0%
! ATTTGGTGAAGTTCTGTGAA+GGG - chr1.1:45202030-45202049 MS.gene72977:CDS 35.0%
AAGTATGCTGGTGTGTTGTA+TGG - chr1.1:45202206-45202225 MS.gene72977:CDS 40.0%
AAGTTCTGTGAAGGGTTGTA+TGG - chr1.1:45202038-45202057 MS.gene72977:CDS 40.0%
AGTAATGAGTTGCAGGTGTT+CGG + chr1.1:45201593-45201612 None:intergenic 40.0%
ATTGAGATTGATGGAGCGTA+GGG + chr1.1:45201426-45201445 None:intergenic 40.0%
GATCGATTGATGAAGTATGC+TGG - chr1.1:45202194-45202213 MS.gene72977:CDS 40.0%
GATGTGAATCAACGAAAGAG+CGG + chr1.1:45201494-45201513 None:intergenic 40.0%
TAATTTCGGAAGGTTACCCT+CGG + chr1.1:45201679-45201698 None:intergenic 40.0%
TCGGTGGTAAGATGATAAGT+CGG + chr1.1:45201574-45201593 None:intergenic 40.0%
TTCACATCCGATCATCTCAA+TGG - chr1.1:45201506-45201525 MS.gene72977:CDS 40.0%
TTCTGGACTTGTGTGTAATG+AGG - chr1.1:45201863-45201882 MS.gene72977:CDS 40.0%
TTGAATTGCTGAAGAGTCAG+GGG - chr1.1:45201775-45201794 MS.gene72977:CDS 40.0%
! ATGGTGGTTTGGATAGAGTT+GGG - chr1.1:45202057-45202076 MS.gene72977:CDS 40.0%
! CATTTGGTGAAGTTCTGTGA+AGG - chr1.1:45202029-45202048 MS.gene72977:CDS 40.0%
! TATGGTGGTTTGGATAGAGT+TGG - chr1.1:45202056-45202075 MS.gene72977:CDS 40.0%
!! GCTGAATTGATGATGAGTTC+TGG - chr1.1:45201846-45201865 MS.gene72977:CDS 40.0%
!! TGCTGGTTAGGGTTTTCTTT+GGG - chr1.1:45201985-45202004 MS.gene72977:CDS 40.0%
!!! TGCTGACTCTTCATGCTTTT+AGG - chr1.1:45202138-45202157 MS.gene72977:CDS 40.0%
AACTCATTACTCCGTCCTCA+AGG - chr1.1:45201602-45201621 MS.gene72977:CDS 45.0%
AGAAACTCAGCAAGCTCATC+AGG + chr1.1:45201963-45201982 None:intergenic 45.0%
AGCTGGGTGACATTTCATAG+CGG - chr1.1:45201891-45201910 MS.gene72977:CDS 45.0%
CGGATAAAGTGAGACCAACT+TGG + chr1.1:45201653-45201672 None:intergenic 45.0%
GATTGAGATTGATGGAGCGT+AGG + chr1.1:45201427-45201446 None:intergenic 45.0%
GGGCTTAATCTCATCCAAGT+TGG - chr1.1:45201636-45201655 MS.gene72977:CDS 45.0%
TCAATGGACACCGAATTTCC+CGG - chr1.1:45201522-45201541 MS.gene72977:CDS 45.0%
TCCATCAATCTCAATCCGAC+CGG - chr1.1:45201431-45201450 MS.gene72977:CDS 45.0%
TCGAGATTGAATGACCACAC+CGG + chr1.1:45201453-45201472 None:intergenic 45.0%
TGAAGGGTTGTATGGTGGTT+TGG - chr1.1:45202046-45202065 MS.gene72977:CDS 45.0%
TGGACTTGTGTGTAATGAGG+AGG - chr1.1:45201866-45201885 MS.gene72977:CDS 45.0%
TGTGTAATGAGGAGGTTAGC+TGG - chr1.1:45201874-45201893 MS.gene72977:CDS 45.0%
TTCTGTGAAGGGTTGTATGG+TGG - chr1.1:45202041-45202060 MS.gene72977:CDS 45.0%
! GCTGGTTAGGGTTTTCTTTG+GGG - chr1.1:45201986-45202005 MS.gene72977:CDS 45.0%
! GTGTAATGAGGAGGTTAGCT+GGG - chr1.1:45201875-45201894 MS.gene72977:CDS 45.0%
! TCGGTGTCCATTGAGATGAT+CGG + chr1.1:45201516-45201535 None:intergenic 45.0%
! TGAATGTGGATCGTGTTGCT+GGG - chr1.1:45202087-45202106 MS.gene72977:CDS 45.0%
!! TGAGTTTCTGGTGCTGGTTA+GGG - chr1.1:45201974-45201993 MS.gene72977:CDS 45.0%
!! TGATGAGCTTGCTGAGTTTC+TGG - chr1.1:45201962-45201981 MS.gene72977:CDS 45.0%
!!! GTGCTGGTTAGGGTTTTCTT+TGG - chr1.1:45201984-45202003 MS.gene72977:CDS 45.0%
AATGAGTTGCAGGTGTTCGG+TGG + chr1.1:45201590-45201609 None:intergenic 50.0%
ACCGGTCGGATTGAGATTGA+TGG + chr1.1:45201435-45201454 None:intergenic 50.0%
AGGACGGAGTAATGAGTTGC+AGG + chr1.1:45201600-45201619 None:intergenic 50.0%
AGTTGGGAAGACGCTGAATG+TGG - chr1.1:45202073-45202092 MS.gene72977:CDS 50.0%
ATAAGTCGGTGATGCCGTCA+GGG + chr1.1:45201560-45201579 None:intergenic 50.0%
CTCACTTTATCCGATGCCGA+GGG - chr1.1:45201660-45201679 MS.gene72977:CDS 50.0%
CTGAATGTGGATCGTGTTGC+TGG - chr1.1:45202086-45202105 MS.gene72977:CDS 50.0%
GATTGAATGACCACACCGGT+CGG + chr1.1:45201449-45201468 None:intergenic 50.0%
TCTCACTTTATCCGATGCCG+AGG - chr1.1:45201659-45201678 MS.gene72977:CDS 50.0%
TGTTGCTGGGAAGAGTCATC+AGG - chr1.1:45202100-45202119 MS.gene72977:CDS 50.0%
!! CTGAGTTTCTGGTGCTGGTT+AGG - chr1.1:45201973-45201992 MS.gene72977:CDS 50.0%
CAATCTCAATCCGACCGGTG+TGG - chr1.1:45201436-45201455 MS.gene72977:CDS 55.0%
GACGACAACGCCGGGAAATT+CGG + chr1.1:45201535-45201554 None:intergenic 55.0%
GATAAGTCGGTGATGCCGTC+AGG + chr1.1:45201561-45201580 None:intergenic 55.0%
GTCCTCAAGGCGAATGTCGA+CGG - chr1.1:45201615-45201634 MS.gene72977:CDS 55.0%
GTCGACATTCGCCTTGAGGA+CGG + chr1.1:45201616-45201635 None:intergenic 55.0%
TCCTCAAGGCGAATGTCGAC+GGG - chr1.1:45201616-45201635 MS.gene72977:CDS 55.0%
TGCTGGGAAGAGTCATCAGG+CGG - chr1.1:45202103-45202122 MS.gene72977:CDS 55.0%
!! GCTTGCTGAGTTTCTGGTGC+TGG - chr1.1:45201968-45201987 MS.gene72977:CDS 55.0%
CGGAAGGTTACCCTCGGCAT+CGG + chr1.1:45201673-45201692 None:intergenic 60.0%
CTGGGAAGAGTCATCAGGCG+GGG - chr1.1:45202105-45202124 MS.gene72977:CDS 60.0%
GCTGGGAAGAGTCATCAGGC+GGG - chr1.1:45202104-45202123 MS.gene72977:CDS 60.0%
AGTCGGTGATGCCGTCAGGG+CGG + chr1.1:45201557-45201576 None:intergenic 65.0%
GCCCGTCGACATTCGCCTTG+AGG + chr1.1:45201620-45201639 None:intergenic 65.0%
GGCGTTGTCGTCCGCCCTGA+CGG - chr1.1:45201543-45201562 MS.gene72977:CDS 70.0%
GTCAGGGCGGACGACAACGC+CGG + chr1.1:45201544-45201563 None:intergenic 70.0%
TCAGGGCGGACGACAACGCC+GGG + chr1.1:45201543-45201562 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 45201393 45202247 45201393 ID=MS.gene72977
chr1.1 mRNA 45201393 45202247 45201393 ID=MS.gene72977.t1;Parent=MS.gene72977
chr1.1 exon 45201393 45202247 45201393 ID=MS.gene72977.t1.exon1;Parent=MS.gene72977.t1
chr1.1 CDS 45201393 45202247 45201393 ID=cds.MS.gene72977.t1;Parent=MS.gene72977.t1
Gene Sequence

>MS.gene72977

ATGTTCACACAAAGCATGTTCATCGCAAAACCCTACGCTCCATCAATCTCAATCCGACCGGTGTGGTCATTCAATCTCGAATCAGAGTTCAAACTCATCCGCTCTTTCGTTGATTCACATCCGATCATCTCAATGGACACCGAATTTCCCGGCGTTGTCGTCCGCCCTGACGGCATCACCGACTTATCATCTTACCACCGAACACCTGCAACTCATTACTCCGTCCTCAAGGCGAATGTCGACGGGCTTAATCTCATCCAAGTTGGTCTCACTTTATCCGATGCCGAGGGTAACCTTCCGAAATTAGAAAAGGAGTTTCTAATTTGGGAATTTAATTTCAGTGATTTTGACGTTGCGCGTGATAATCACGCGCACGAGTCAATTGAATTGCTGAAGAGTCAGGGGATTGATTTCGAGAAGAATAAGGAATTTGGAATTGACTCATGGAAATTTGCTGAATTGATGATGAGTTCTGGACTTGTGTGTAATGAGGAGGTTAGCTGGGTGACATTTCATAGCGGTTATGATTTCGGATATTTGGTGAAAGCGTTGACGCAGAGAGCTTTGCCTGATGAGCTTGCTGAGTTTCTGGTGCTGGTTAGGGTTTTCTTTGGGGAGAGTGTTTATGATGTGAAGCATTTGGTGAAGTTCTGTGAAGGGTTGTATGGTGGTTTGGATAGAGTTGGGAAGACGCTGAATGTGGATCGTGTTGCTGGGAAGAGTCATCAGGCGGGGTCTGATAGTTTGCTGACTCTTCATGCTTTTAGGAAGATTAAGGAAGTTCACTTTGGGAATGATGTTGATCGATTGATGAAGTATGCTGGTGTGTTGTATGGATTAGAAAATGTGGTTTAA
Protein sequence

>MS.gene72977.t1

MFTQSMFIAKPYAPSISIRPVWSFNLESEFKLIRSFVDSHPIISMDTEFPGVVVRPDGITDLSSYHRTPATHYSVLKANVDGLNLIQVGLTLSDAEGNLPKLEKEFLIWEFNFSDFDVARDNHAHESIELLKSQGIDFEKNKEFGIDSWKFAELMMSSGLVCNEEVSWVTFHSGYDFGYLVKALTQRALPDELAEFLVLVRVFFGESVYDVKHLVKFCEGLYGGLDRVGKTLNVDRVAGKSHQAGSDSLLTLHAFRKIKEVHFGNDVDRLMKYAGVLYGLENVV