AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene76908


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene76908.t1 MTR_7g007120 94.737 171 9 0 11 181 11 181 1.78e-124 348
MS.gene76908.t1 MTR_7g007200 94.152 171 10 0 11 181 11 181 3.33e-124 347
MS.gene76908.t1 MTR_7g007220 94.737 171 9 0 11 181 11 181 3.36e-124 347
MS.gene76908.t1 MTR_7g007120 94.706 170 9 0 12 181 12 181 7.25e-124 347
MS.gene76908.t1 MTR_7g007120 94.152 171 10 0 11 181 11 181 9.54e-124 346
MS.gene76908.t1 MTR_7g007230 92.941 170 12 0 12 181 12 181 5.30e-121 339
MS.gene76908.t1 MTR_6g018310 85.475 179 25 1 4 181 2 180 4.00e-115 324
MS.gene76908.t1 MTR_6g018300 84.916 179 23 2 4 181 2 177 2.84e-112 317
MS.gene76908.t1 MTR_7g007210 94.805 154 8 0 11 164 11 164 2.48e-110 313
MS.gene76908.t1 MTR_4g127870 50.641 156 73 3 28 180 15 169 1.09e-57 179
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene76908.t1 AT1G67090 71.429 182 47 2 1 181 1 178 6.50e-94 271
MS.gene76908.t1 AT5G38430 70.879 182 48 2 1 181 1 178 6.15e-93 268
MS.gene76908.t1 AT5G38430 70.879 182 48 2 1 181 1 178 6.15e-93 268
MS.gene76908.t1 AT5G38410 70.330 182 49 2 1 181 1 178 1.30e-92 268
MS.gene76908.t1 AT5G38420 70.330 182 49 2 1 181 1 178 3.51e-92 266
MS.gene76908.t1 AT5G38410 68.449 187 49 3 1 181 1 183 2.53e-90 262
MS.gene76908.t1 AT5G38410 67.582 182 47 3 1 181 1 171 1.08e-85 249
MS.gene76908.t1 AT1G67090 65.217 115 35 2 1 114 1 111 1.01e-45 147

Find 54 sgRNAs with CRISPR-Local

Find 68 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGAAGTTGATTACCTTATA+AGG 0.266546 7.2:-91224389 MS.gene76908:CDS
CAACCCATCCCTTCCTTATA+AGG 0.273690 7.2:+91224376 None:intergenic
TCTTTGTTGATCTTTGTAAC+TGG 0.311725 7.2:+91224749 None:intergenic
GGCGCGGTGGCTCCATTTGT+TGG 0.347642 7.2:-91224794 MS.gene76908:CDS
GAAGGGATGGGTTGCTTGCT+TGG 0.368783 7.2:-91224367 MS.gene76908:CDS
GATACTATGATGGACGTTAC+TGG 0.371866 7.2:-91224171 MS.gene76908:CDS
TTCTTTCGCCAATTGTTCTC+TGG 0.378466 7.2:+91224407 None:intergenic
CGATTCTTCTCAAGTGTTGA+AGG 0.396980 7.2:-91224116 MS.gene76908:CDS
TCTTCCACCATTGCTTGTAA+TGG 0.401668 7.2:+91224718 None:intergenic
GCCAATTGTTCTCTGGTCAA+TGG 0.405140 7.2:+91224414 None:intergenic
ACCATTGACCAGAGAACAAT+TGG 0.409622 7.2:-91224415 MS.gene76908:CDS
ATGTGGAAGTTGCCTTTGTT+TGG 0.411503 7.2:-91224145 MS.gene76908:CDS
ATATAGGTGTGGCCTCCTAT+TGG 0.416991 7.2:-91224471 MS.gene76908:intron
TCAAACTTCTTCTTGCCAAT+AGG 0.435101 7.2:+91224456 None:intergenic
ATGATACGGACAAAGGCATC+AGG 0.443523 7.2:+91224067 None:intergenic
CTTCAACACTTGAGAAGAAT+CGG 0.461194 7.2:+91224117 None:intergenic
CGCGCCTCGTCGGTTCAATC+CGG 0.461844 7.2:-91224815 MS.gene76908:CDS
GATGCCTTTGTCCGTATCAT+CGG 0.484184 7.2:-91224064 MS.gene76908:CDS
CTTTGTTGATCTTTGTAACT+GGG 0.495423 7.2:+91224750 None:intergenic
ATTACCTTATAAGGAAGGGA+TGG 0.507588 7.2:-91224380 MS.gene76908:CDS
GTTGGACTAAAGTCCATGGC+TGG 0.513160 7.2:-91224776 MS.gene76908:CDS
AACTTCTTCTTGCCAATAGG+AGG 0.515017 7.2:+91224459 None:intergenic
ATGGACTTTAGTCCAACAAA+TGG 0.519141 7.2:+91224782 None:intergenic
AGTTGATTACCTTATAAGGA+AGG 0.522099 7.2:-91224385 MS.gene76908:CDS
TCCACCATTGCTTGTAATGG+AGG 0.530318 7.2:+91224721 None:intergenic
CATAGTATCCTGGTGACTTG+TGG 0.542155 7.2:+91224185 None:intergenic
CGTGAGAACCACAAGTCACC+AGG 0.544938 7.2:-91224193 MS.gene76908:CDS
AACTGTAGTTACAGCTGAAG+AGG 0.546956 7.2:+91224841 None:intergenic
TTACCTTATAAGGAAGGGAT+GGG 0.559428 7.2:-91224379 MS.gene76908:CDS
AACAAATGGAGCCACCGCGC+CGG 0.560979 7.2:+91224796 None:intergenic
TACAGTTAACCGCGCCTCGT+CGG 0.566785 7.2:-91224825 MS.gene76908:CDS
GTTGATTACCTTATAAGGAA+GGG 0.567383 7.2:-91224384 MS.gene76908:CDS
TAACGTCCATCATAGTATCC+TGG 0.569613 7.2:+91224175 None:intergenic
CAATGAACTTAGTAGACTGC+AGG 0.571658 7.2:+91223992 None:intergenic
AAGTCACCAGGATACTATGA+TGG 0.574009 7.2:-91224181 MS.gene76908:CDS
CGGATTGAACCGACGAGGCG+CGG 0.577823 7.2:+91224816 None:intergenic
CGTTGTCGAATCCGATGATA+CGG 0.579522 7.2:+91224053 None:intergenic
ATTTGTTGGACTAAAGTCCA+TGG 0.586371 7.2:-91224780 MS.gene76908:CDS
CTGGTGACTTGTGGTTCTCA+CGG 0.595328 7.2:+91224194 None:intergenic
GAATCGGTTGCTCCAAACAA+AGG 0.598394 7.2:+91224133 None:intergenic
AATTGTTCTCTGGTCAATGG+TGG 0.600961 7.2:+91224417 None:intergenic
ATTACCTCCATTACAAGCAA+TGG 0.604904 7.2:-91224725 MS.gene76908:CDS
TTGCTTGGAATTTGAGACCG+AGG 0.613015 7.2:-91224352 MS.gene76908:intron
ACCTCCATTACAAGCAATGG+TGG 0.613355 7.2:-91224722 MS.gene76908:CDS
TGTAACTGGGAAGCCAGCCA+TGG 0.615947 7.2:+91224763 None:intergenic
GTTCTCTGGTCAATGGTGGA+AGG 0.618328 7.2:+91224421 None:intergenic
GTCGGTTCAATCCGGCGCGG+TGG 0.622925 7.2:-91224807 MS.gene76908:CDS
TGGAAGAGTAAACTGCATGC+AGG 0.652563 7.2:-91224702 MS.gene76908:intron
AGCTGAAGAGGAGATCATAG+AGG 0.655372 7.2:+91224853 None:intergenic
TGATACGGACAAAGGCATCA+GGG 0.656050 7.2:+91224068 None:intergenic
CGCGCCGGATTGAACCGACG+AGG 0.686777 7.2:+91224811 None:intergenic
GAATCCGATGATACGGACAA+AGG 0.687909 7.2:+91224060 None:intergenic
CTCGTCGGTTCAATCCGGCG+CGG 0.728671 7.2:-91224810 MS.gene76908:CDS
ATGGACGTTACTGGACAATG+TGG 0.742197 7.2:-91224162 MS.gene76908:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTAAAACTTTGTACATTAT+TGG - chr7.2:91224235-91224254 MS.gene76908:intron 15.0%
!!! ATAATGTACAAAGTTTTAAT+TGG + chr7.2:91224235-91224254 None:intergenic 15.0%
!! AAATAACATTAATAGAGCAT+TGG - chr7.2:91224315-91224334 MS.gene76908:intron 20.0%
!! AATGTACAAAAGATTAAGTT+AGG + chr7.2:91224363-91224382 None:intergenic 20.0%
!! ATGTACAAAAGATTAAGTTA+GGG + chr7.2:91224362-91224381 None:intergenic 20.0%
!! TTTGTACATTACTACTATAT+AGG - chr7.2:91224373-91224392 MS.gene76908:CDS 20.0%
!!! GATTTCATGTTTTTTTCATA+AGG - chr7.2:91224280-91224299 MS.gene76908:intron 20.0%
! TGTACAAAAGATTAAGTTAG+GGG + chr7.2:91224361-91224380 None:intergenic 25.0%
!! AAGAAGTTGATTACCTTATA+AGG - chr7.2:91224471-91224490 MS.gene76908:intron 25.0%
!!! TGTTTGTTTTGATTTGTACT+TGG - chr7.2:91224619-91224638 MS.gene76908:intron 25.0%
ACATTACTACTATATAGGTG+TGG - chr7.2:91224378-91224397 MS.gene76908:CDS 30.0%
AGTTGATTACCTTATAAGGA+AGG - chr7.2:91224475-91224494 MS.gene76908:intron 30.0%
CTTTGTTGATCTTTGTAACT+GGG + chr7.2:91224113-91224132 None:intergenic 30.0%
GTTGATTACCTTATAAGGAA+GGG - chr7.2:91224476-91224495 MS.gene76908:intron 30.0%
TCTTTGTTGATCTTTGTAAC+TGG + chr7.2:91224114-91224133 None:intergenic 30.0%
TTGCAAGTAATATTAGACCT+CGG + chr7.2:91224528-91224547 None:intergenic 30.0%
! GGGCTTAATAAAATTTTGCA+TGG + chr7.2:91224341-91224360 None:intergenic 30.0%
ATGGACTTTAGTCCAACAAA+TGG + chr7.2:91224081-91224100 None:intergenic 35.0%
ATTACCTCCATTACAAGCAA+TGG - chr7.2:91224135-91224154 MS.gene76908:CDS 35.0%
ATTACCTTATAAGGAAGGGA+TGG - chr7.2:91224480-91224499 MS.gene76908:intron 35.0%
CTTCAACACTTGAGAAGAAT+CGG + chr7.2:91224746-91224765 None:intergenic 35.0%
TCAAACTTCTTCTTGCCAAT+AGG + chr7.2:91224407-91224426 None:intergenic 35.0%
TTACCTTATAAGGAAGGGAT+GGG - chr7.2:91224481-91224500 MS.gene76908:intron 35.0%
! ATTTGTTGGACTAAAGTCCA+TGG - chr7.2:91224080-91224099 MS.gene76908:CDS 35.0%
AACTGTAGTTACAGCTGAAG+AGG + chr7.2:91224022-91224041 None:intergenic 40.0%
AACTTCTTCTTGCCAATAGG+AGG + chr7.2:91224404-91224423 None:intergenic 40.0%
AAGTCACCAGGATACTATGA+TGG - chr7.2:91224679-91224698 MS.gene76908:intron 40.0%
AATTGTTCTCTGGTCAATGG+TGG + chr7.2:91224446-91224465 None:intergenic 40.0%
ACCATTGACCAGAGAACAAT+TGG - chr7.2:91224445-91224464 MS.gene76908:CDS 40.0%
ATGTGGAAGTTGCCTTTGTT+TGG - chr7.2:91224715-91224734 MS.gene76908:CDS 40.0%
CAAATTTGTGACTGTGACCT+TGG + chr7.2:91224588-91224607 None:intergenic 40.0%
TAACGTCCATCATAGTATCC+TGG + chr7.2:91224688-91224707 None:intergenic 40.0%
TCTTCCACCATTGCTTGTAA+TGG + chr7.2:91224145-91224164 None:intergenic 40.0%
TTCTTTCGCCAATTGTTCTC+TGG + chr7.2:91224456-91224475 None:intergenic 40.0%
!! CGATTCTTCTCAAGTGTTGA+AGG - chr7.2:91224744-91224763 MS.gene76908:CDS 40.0%
!! GATACTATGATGGACGTTAC+TGG - chr7.2:91224689-91224708 MS.gene76908:intron 40.0%
ACCTCCATTACAAGCAATGG+TGG - chr7.2:91224138-91224157 MS.gene76908:CDS 45.0%
AGCTGAAGAGGAGATCATAG+AGG + chr7.2:91224010-91224029 None:intergenic 45.0%
ATATAGGTGTGGCCTCCTAT+TGG - chr7.2:91224389-91224408 MS.gene76908:CDS 45.0%
ATGGACGTTACTGGACAATG+TGG - chr7.2:91224698-91224717 MS.gene76908:intron 45.0%
CAACCCATCCCTTCCTTATA+AGG + chr7.2:91224487-91224506 None:intergenic 45.0%
CATAGTATCCTGGTGACTTG+TGG + chr7.2:91224678-91224697 None:intergenic 45.0%
CGTTGTCGAATCCGATGATA+CGG + chr7.2:91224810-91224829 None:intergenic 45.0%
GAATCCGATGATACGGACAA+AGG + chr7.2:91224803-91224822 None:intergenic 45.0%
GAATCGGTTGCTCCAAACAA+AGG + chr7.2:91224730-91224749 None:intergenic 45.0%
GATGCCTTTGTCCGTATCAT+CGG - chr7.2:91224796-91224815 MS.gene76908:CDS 45.0%
GCCAATTGTTCTCTGGTCAA+TGG + chr7.2:91224449-91224468 None:intergenic 45.0%
GTACTTGGTTACTCGCAGAA+AGG - chr7.2:91224634-91224653 MS.gene76908:intron 45.0%
TCCACCATTGCTTGTAATGG+AGG + chr7.2:91224142-91224161 None:intergenic 45.0%
TGGAAGAGTAAACTGCATGC+AGG - chr7.2:91224158-91224177 MS.gene76908:CDS 45.0%
! TTGCTTGGAATTTGAGACCG+AGG - chr7.2:91224508-91224527 MS.gene76908:intron 45.0%
!! ATGATACGGACAAAGGCATC+AGG + chr7.2:91224796-91224815 None:intergenic 45.0%
!! TGATACGGACAAAGGCATCA+GGG + chr7.2:91224795-91224814 None:intergenic 45.0%
GTTGGACTAAAGTCCATGGC+TGG - chr7.2:91224084-91224103 MS.gene76908:CDS 50.0%
! CTGGTGACTTGTGGTTCTCA+CGG + chr7.2:91224669-91224688 None:intergenic 50.0%
! GTTCTCTGGTCAATGGTGGA+AGG + chr7.2:91224442-91224461 None:intergenic 50.0%
!! TCGTTGTTTTGTCGCGACCA+AGG - chr7.2:91224568-91224587 MS.gene76908:intron 50.0%
CGTGAGAACCACAAGTCACC+AGG - chr7.2:91224667-91224686 MS.gene76908:intron 55.0%
TACAGTTAACCGCGCCTCGT+CGG - chr7.2:91224035-91224054 MS.gene76908:CDS 55.0%
TGTAACTGGGAAGCCAGCCA+TGG + chr7.2:91224100-91224119 None:intergenic 55.0%
!! GAAGGGATGGGTTGCTTGCT+TGG - chr7.2:91224493-91224512 MS.gene76908:intron 55.0%
AACAAATGGAGCCACCGCGC+CGG + chr7.2:91224067-91224086 None:intergenic 60.0%
CGGATTGAACCGACGAGGCG+CGG + chr7.2:91224047-91224066 None:intergenic 65.0%
GGCGCGGTGGCTCCATTTGT+TGG - chr7.2:91224066-91224085 MS.gene76908:CDS 65.0%
!! CGCGCCTCGTCGGTTCAATC+CGG - chr7.2:91224045-91224064 MS.gene76908:CDS 65.0%
!! CTCGTCGGTTCAATCCGGCG+CGG - chr7.2:91224050-91224069 MS.gene76908:CDS 65.0%
CGCGCCGGATTGAACCGACG+AGG + chr7.2:91224052-91224071 None:intergenic 70.0%
! GTCGGTTCAATCCGGCGCGG+TGG - chr7.2:91224053-91224072 MS.gene76908:CDS 70.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 91224000 91224882 91224000 ID=MS.gene76908
chr7.2 mRNA 91224000 91224882 91224000 ID=MS.gene76908.t1;Parent=MS.gene76908
chr7.2 exon 91224703 91224882 91224703 ID=MS.gene76908.t1.exon1;Parent=MS.gene76908.t1
chr7.2 CDS 91224703 91224882 91224703 ID=cds.MS.gene76908.t1;Parent=MS.gene76908.t1
chr7.2 exon 91224353 91224487 91224353 ID=MS.gene76908.t1.exon2;Parent=MS.gene76908.t1
chr7.2 CDS 91224353 91224487 91224353 ID=cds.MS.gene76908.t1;Parent=MS.gene76908.t1
chr7.2 exon 91224000 91224230 91224000 ID=MS.gene76908.t1.exon3;Parent=MS.gene76908.t1
chr7.2 CDS 91224000 91224230 91224000 ID=cds.MS.gene76908.t1;Parent=MS.gene76908.t1
Gene Sequence

>MS.gene76908

ATGGCTGCCTCTATGATCTCCTCTTCAGCTGTAACTACAGTTAACCGCGCCTCGTCGGTTCAATCCGGCGCGGTGGCTCCATTTGTTGGACTAAAGTCCATGGCTGGCTTCCCAGTTACAAAGATCAACAAAGACATTACCTCCATTACAAGCAATGGTGGAAGAGTAAACTGCATGCAGGTGAGAAATACTGCGCTAAGTCTAGTTTGAAATAACTTTTAGTTCAAATTTTCCAATTAAAACTTTGTACATTATTGGTTCATAGTATTTTAGTTGAAATGATTTCATGTTTTTTTCATAAGGTTACTTAAATTTAAATAACATTAATAGAGCATTGGCCATGCAAAATTTTATTAAGCCCCTAACTTAATCTTTTGTACATTACTACTATATAGGTGTGGCCTCCTATTGGCAAGAAGAAGTTTGAGACACTTTCATACCTTCCACCATTGACCAGAGAACAATTGGCGAAAGAAGTTGATTACCTTATAAGGAAGGGATGGGTTGCTTGCTTGGAATTTGAGACCGAGGTCTAATATTACTTGCAATATCTTCTCAATATATATAATCGTTGTTTTGTCGCGACCAAGGTCACAGTCACAAATTTGTATTTAACATATGTTTGTTTTGATTTGTACTTGGTTACTCGCAGAAAGGATTTGTGTACCGTGAGAACCACAAGTCACCAGGATACTATGATGGACGTTACTGGACAATGTGGAAGTTGCCTTTGTTTGGAGCAACCGATTCTTCTCAAGTGTTGAAGGAGCTTGATGAAGCTATTGCTGCTTACCCTGATGCCTTTGTCCGTATCATCGGATTCGACAACGTTCGTCAAGTTCAATGCATCAGTTTCATTGCACACACACCTGCAGTCTACTAA

Protein sequence

>MS.gene76908.t1

MAASMISSSAVTTVNRASSVQSGAVAPFVGLKSMAGFPVTKINKDITSITSNGGRVNCMQVWPPIGKKKFETLSYLPPLTREQLAKEVDYLIRKGWVACLEFETEKGFVYRENHKSPGYYDGRYWTMWKLPLFGATDSSQVLKELDEAIAAYPDAFVRIIGFDNVRQVQCISFIAHTPAVY