AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene47032

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene47032.t1 MTR_3g061130 86.792 212 28 0 39 250 5 216 2.02e-135 380
MS.gene47032.t1 MTR_5g088410 68.950 219 37 4 32 250 1 188 4.74e-92 269
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene47032.t1 AT3G13230 73.709 213 56 0 36 248 3 215 5.53e-119 338
MS.gene47032.t1 AT3G13230 73.709 213 56 0 36 248 3 215 5.53e-119 338

Find 61 sgRNAs with CRISPR-Local

Find 91 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGATCCCAATATATGAATTT+TGG 0.167840 5.1:+69746304 None:intergenic
TTTCCTTTGTGACCTAATTA+AGG 0.193992 5.1:-69746255 MS.gene47032:CDS
TGATGCCAAAATTCATATAT+TGG 0.231356 5.1:-69746309 MS.gene47032:CDS
CTGCAGGTGATCCCTTAATT+AGG 0.312167 5.1:+69746243 None:intergenic
TGCTATTGCTCTTCTGCGTT+TGG 0.322637 5.1:-69746480 MS.gene47032:CDS
AAGCTGTCACGAAAGCATTA+TGG 0.348418 5.1:+69747287 None:intergenic
CTTGGTCTTACCAAGTTTGC+CGG 0.354396 5.1:+69746373 None:intergenic
AGCATTCTCAATTGCAAACT+TGG 0.360266 5.1:+69746355 None:intergenic
TTTGTCCATGCTTTCATGCT+TGG 0.366098 5.1:-69746518 MS.gene47032:CDS
AGAGGCTCAAACTTCGGCTT+TGG 0.381347 5.1:+69746758 None:intergenic
TTCCTTTGTGACCTAATTAA+GGG 0.390563 5.1:-69746254 MS.gene47032:CDS
CGCATCGCTATACCCCTCTT+AGG 0.397983 5.1:-69746679 MS.gene47032:CDS
AGAAGTAACTGCTCTCAATC+TGG 0.402249 5.1:+69746208 None:intergenic
GATGCCAAAATTCATATATT+GGG 0.412346 5.1:-69746308 MS.gene47032:CDS
TCATGAGATTTCTACTGGTC+AGG 0.417970 5.1:-69746729 MS.gene47032:CDS
TGTTGAGTCCTTTGAGATCA+AGG 0.427401 5.1:-69746447 MS.gene47032:CDS
GGCTCAAACTTCGGCTTTGG+TGG 0.437317 5.1:+69746761 None:intergenic
GGAAGATTGTCCGGCAAACT+TGG 0.443007 5.1:-69746383 MS.gene47032:CDS
CGTGCAATTGGAAGATTGTC+CGG 0.459600 5.1:-69746392 MS.gene47032:CDS
GATCACTTGTCACGTGCAAT+TGG 0.463391 5.1:-69746404 MS.gene47032:CDS
TTGTAAACATTAAGATTGCT+AGG 0.464495 5.1:-69746280 MS.gene47032:CDS
ATCATCATCTGCTCATATAT+AGG 0.466120 5.1:+69746632 None:intergenic
ATGGGTGGGTCAAGGTAGAA+AGG 0.477640 5.1:+69747338 None:intergenic
TCCGTATGAATTTGAAGCCT+CGG 0.478260 5.1:-69746604 MS.gene47032:CDS
TGTAAACATTAAGATTGCTA+GGG 0.485384 5.1:-69746279 MS.gene47032:CDS
CCCTCTTAGGAAAGCTTGGA+TGG 0.488099 5.1:-69746666 MS.gene47032:CDS
GGTTTCAGAGGCTCAAACTT+CGG 0.488900 5.1:+69746752 None:intergenic
TCCATCCAAGCTTTCCTAAG+AGG 0.494180 5.1:+69746665 None:intergenic
TGGGTGGGTCAAGGTAGAAA+GGG 0.501523 5.1:+69747339 None:intergenic
GGGTGGGTCAAGGTAGAAAG+GGG 0.501782 5.1:+69747340 None:intergenic
TCCGAGGCTTCAAATTCATA+CGG 0.504296 5.1:+69746603 None:intergenic
GAGAGCAGTTACTTCTAAGC+TGG 0.504373 5.1:-69746201 MS.gene47032:CDS
CTAATTAAGGGATCACCTGC+AGG 0.506285 5.1:-69746242 MS.gene47032:CDS
ATACCCCTCTTAGGAAAGCT+TGG 0.506546 5.1:-69746670 MS.gene47032:CDS
CCATCCAAGCTTTCCTAAGA+GGG 0.509832 5.1:+69746666 None:intergenic
AAACCTCATGAGATTTCTAC+TGG 0.521426 5.1:-69746734 MS.gene47032:CDS
AAGGATGTTAAGACACTTCG+TGG 0.522124 5.1:-69746428 MS.gene47032:CDS
TAAGGGATCACCTGCAGGAA+AGG 0.533097 5.1:-69746237 MS.gene47032:CDS
CTGGAACAGACCTTTCCTGC+AGG 0.538321 5.1:+69746227 None:intergenic
GTCTAACAAAACATATTCGA+TGG 0.546689 5.1:-69746819 MS.gene47032:CDS
TTTGCACTAGATTGAATGCA+TGG 0.551952 5.1:+69747319 None:intergenic
CACTAGATTGAATGCATGGG+TGG 0.555856 5.1:+69747323 None:intergenic
CAATCTAGTGCAAAATCTAA+CGG 0.559870 5.1:-69747310 MS.gene47032:CDS
GGAAAATTGAGCTGAAGACA+AGG 0.581201 5.1:-69746583 MS.gene47032:CDS
TTGAATGCATGGGTGGGTCA+AGG 0.584064 5.1:+69747330 None:intergenic
CAAAACCAAGCATGAAAGCA+TGG 0.604734 5.1:+69746513 None:intergenic
CTTAACATCCTTGATCTCAA+AGG 0.606154 5.1:+69746439 None:intergenic
GGTGGGTCAAGGTAGAAAGG+GGG 0.611762 5.1:+69747341 None:intergenic
GAAATCTCATGAGGTTTCAG+AGG 0.613445 5.1:+69746740 None:intergenic
TTGCACTAGATTGAATGCAT+GGG 0.616671 5.1:+69747320 None:intergenic
GTAAACATTAAGATTGCTAG+GGG 0.620738 5.1:-69746278 MS.gene47032:CDS
ATCCCTTAATTAGGTCACAA+AGG 0.627414 5.1:+69746252 None:intergenic
TTGAGAATGCTTCTAAGACG+AGG 0.657784 5.1:-69746343 MS.gene47032:CDS
AGAGGGGTATAGCGATGCGG+TGG 0.669136 5.1:+69746683 None:intergenic
TGGTCAGGTTCAGTTCCGCA+AGG 0.669299 5.1:-69746714 MS.gene47032:CDS
CATCCAAGCTTTCCTAAGAG+GGG 0.671655 5.1:+69746667 None:intergenic
TGACCAGTAGAAATCTCATG+AGG 0.705113 5.1:+69746731 None:intergenic
CTAAGAGGGGTATAGCGATG+CGG 0.719010 5.1:+69746680 None:intergenic
TTACTTCTAAGCTGGCAGAG+AGG 0.721447 5.1:-69746193 MS.gene47032:CDS
ACTAGATTGAATGCATGGGT+GGG 0.723566 5.1:+69747324 None:intergenic
GCGGTGGAACTGATACCTTG+CGG 0.766529 5.1:+69746699 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAGTGAAATATATTGTATT+GGG + chr5.1:69746550-69746569 None:intergenic 15.0%
!! ATTTAGTGTTATATTGTATT+GGG + chr5.1:69746509-69746528 None:intergenic 15.0%
!! TATTTAGTGTTATATTGTAT+TGG + chr5.1:69746510-69746529 None:intergenic 15.0%
!!! TAAGAAAAGTGTATAAATAA+AGG + chr5.1:69746575-69746594 None:intergenic 15.0%
!!! TGGATTGTTTTATTTAAATA+GGG + chr5.1:69746307-69746326 None:intergenic 15.0%
!!! TTGGATTGTTTTATTTAAAT+AGG + chr5.1:69746308-69746327 None:intergenic 15.0%
!! GAAAGTGAAATATATTGTAT+TGG + chr5.1:69746551-69746570 None:intergenic 20.0%
!!! GACACTTTTTTTTAGAAAAT+GGG + chr5.1:69746440-69746459 None:intergenic 20.0%
! GATGCCAAAATTCATATATT+GGG - chr5.1:69747228-69747247 MS.gene47032:intron 25.0%
! TGATGCCAAAATTCATATAT+TGG - chr5.1:69747227-69747246 MS.gene47032:intron 25.0%
! TGTAAACATTAAGATTGCTA+GGG - chr5.1:69747257-69747276 MS.gene47032:intron 25.0%
! TTGTAAACATTAAGATTGCT+AGG - chr5.1:69747256-69747275 MS.gene47032:intron 25.0%
!! AGATCCCAATATATGAATTT+TGG + chr5.1:69747235-69747254 None:intergenic 25.0%
!! TTGAAATGAGTCAGTTATTT+TGG + chr5.1:69746463-69746482 None:intergenic 25.0%
!!! GGACACTTTTTTTTAGAAAA+TGG + chr5.1:69746441-69746460 None:intergenic 25.0%
!!! TGAAATGAGTCAGTTATTTT+GGG + chr5.1:69746462-69746481 None:intergenic 25.0%
ATCATCATCTGCTCATATAT+AGG + chr5.1:69746907-69746926 None:intergenic 30.0%
CAATCTAGTGCAAAATCTAA+CGG - chr5.1:69746226-69746245 MS.gene47032:CDS 30.0%
GTAAACATTAAGATTGCTAG+GGG - chr5.1:69747258-69747277 MS.gene47032:intron 30.0%
GTCTAACAAAACATATTCGA+TGG - chr5.1:69746717-69746736 MS.gene47032:CDS 30.0%
TTCCTTTGTGACCTAATTAA+GGG - chr5.1:69747282-69747301 MS.gene47032:intron 30.0%
TTTCCTTTGTGACCTAATTA+AGG - chr5.1:69747281-69747300 MS.gene47032:intron 30.0%
AAACCTCATGAGATTTCTAC+TGG - chr5.1:69746802-69746821 MS.gene47032:CDS 35.0%
AGAAAATGGGTCAGTTATTC+CGG + chr5.1:69746427-69746446 None:intergenic 35.0%
AGCATTCTCAATTGCAAACT+TGG + chr5.1:69747184-69747203 None:intergenic 35.0%
ATCCCTTAATTAGGTCACAA+AGG + chr5.1:69747287-69747306 None:intergenic 35.0%
CTTAACATCCTTGATCTCAA+AGG + chr5.1:69747100-69747119 None:intergenic 35.0%
TCGGTTTAATTGACCTACTT+TGG + chr5.1:69746612-69746631 None:intergenic 35.0%
TCTGTGTGAAAAACCAAAGT+AGG - chr5.1:69746596-69746615 MS.gene47032:CDS 35.0%
TTGCACTAGATTGAATGCAT+GGG + chr5.1:69746219-69746238 None:intergenic 35.0%
TTTGCACTAGATTGAATGCA+TGG + chr5.1:69746220-69746239 None:intergenic 35.0%
! TTTTGCAAGTTGCTGATATC+AGG + chr5.1:69746988-69747007 None:intergenic 35.0%
AAATGTTACTCGCTCTGTCT+CGG + chr5.1:69746631-69746650 None:intergenic 40.0%
AAGGATGTTAAGACACTTCG+TGG - chr5.1:69747108-69747127 MS.gene47032:intron 40.0%
ACTAGATTGAATGCATGGGT+GGG + chr5.1:69746215-69746234 None:intergenic 40.0%
AGAAGTAACTGCTCTCAATC+TGG + chr5.1:69747331-69747350 None:intergenic 40.0%
CAAAACCAAGCATGAAAGCA+TGG + chr5.1:69747026-69747045 None:intergenic 40.0%
GAAAATGGGTCAGTTATTCC+GGG + chr5.1:69746426-69746445 None:intergenic 40.0%
GAAATCTCATGAGGTTTCAG+AGG + chr5.1:69746799-69746818 None:intergenic 40.0%
GGAAAATTGAGCTGAAGACA+AGG - chr5.1:69746953-69746972 MS.gene47032:intron 40.0%
TAGAACACCTGAAGTAGTAC+TGG - chr5.1:69746366-69746385 MS.gene47032:CDS 40.0%
TCATGAGATTTCTACTGGTC+AGG - chr5.1:69746807-69746826 MS.gene47032:CDS 40.0%
TCCAAACAGACCTGAATGTT+CGG - chr5.1:69746323-69746342 MS.gene47032:CDS 40.0%
TCCGAGGCTTCAAATTCATA+CGG + chr5.1:69746936-69746955 None:intergenic 40.0%
TGACCAGTAGAAATCTCATG+AGG + chr5.1:69746808-69746827 None:intergenic 40.0%
TTTGTCCATGCTTTCATGCT+TGG - chr5.1:69747018-69747037 MS.gene47032:intron 40.0%
! TCCGTATGAATTTGAAGCCT+CGG - chr5.1:69746932-69746951 MS.gene47032:intron 40.0%
!! AAGCTGTCACGAAAGCATTA+TGG + chr5.1:69746252-69746271 None:intergenic 40.0%
!! TGTTGAGTCCTTTGAGATCA+AGG - chr5.1:69747089-69747108 MS.gene47032:intron 40.0%
!! TTGAGAATGCTTCTAAGACG+AGG - chr5.1:69747193-69747212 MS.gene47032:intron 40.0%
!!! AGCTTCGTGAGTTTTGTTCT+CGG - chr5.1:69746267-69746286 MS.gene47032:CDS 40.0%
ACCGAACATTCAGGTCTGTT+TGG + chr5.1:69746327-69746346 None:intergenic 45.0%
ATACCCCTCTTAGGAAAGCT+TGG - chr5.1:69746866-69746885 MS.gene47032:intron 45.0%
CACTAGATTGAATGCATGGG+TGG + chr5.1:69746216-69746235 None:intergenic 45.0%
CATCCAAGCTTTCCTAAGAG+GGG + chr5.1:69746872-69746891 None:intergenic 45.0%
CCATCCAAGCTTTCCTAAGA+GGG + chr5.1:69746873-69746892 None:intergenic 45.0%
CGTGCAATTGGAAGATTGTC+CGG - chr5.1:69747144-69747163 MS.gene47032:intron 45.0%
CTAATTAAGGGATCACCTGC+AGG - chr5.1:69747294-69747313 MS.gene47032:CDS 45.0%
CTAGCTACCAGTACTACTTC+AGG + chr5.1:69746376-69746395 None:intergenic 45.0%
CTGCAGGTGATCCCTTAATT+AGG + chr5.1:69747296-69747315 None:intergenic 45.0%
GAGAACTTCACCGAACATTC+AGG + chr5.1:69746336-69746355 None:intergenic 45.0%
GAGAGCAGTTACTTCTAAGC+TGG - chr5.1:69747335-69747354 MS.gene47032:CDS 45.0%
GATCACTTGTCACGTGCAAT+TGG - chr5.1:69747132-69747151 MS.gene47032:intron 45.0%
GGTTTCAGAGGCTCAAACTT+CGG + chr5.1:69746787-69746806 None:intergenic 45.0%
TCCATCCAAGCTTTCCTAAG+AGG + chr5.1:69746874-69746893 None:intergenic 45.0%
TGCTATTGCTCTTCTGCGTT+TGG - chr5.1:69747056-69747075 MS.gene47032:intron 45.0%
TTACTTCTAAGCTGGCAGAG+AGG - chr5.1:69747343-69747362 MS.gene47032:CDS 45.0%
! GTCTTCAGCTCAATTTTCCG+AGG + chr5.1:69746952-69746971 None:intergenic 45.0%
! TGTTCGGTGAAGTTCTCTGT+TGG - chr5.1:69746339-69746358 MS.gene47032:CDS 45.0%
!! CTTGGTCTTACCAAGTTTGC+CGG + chr5.1:69747166-69747185 None:intergenic 45.0%
!!! GCTTCGTGAGTTTTGTTCTC+GGG - chr5.1:69746268-69746287 MS.gene47032:CDS 45.0%
AGAGGCTCAAACTTCGGCTT+TGG + chr5.1:69746781-69746800 None:intergenic 50.0%
ATGGGTCAGTTATTCCGGGA+CGG + chr5.1:69746422-69746441 None:intergenic 50.0%
ATGGGTGGGTCAAGGTAGAA+AGG + chr5.1:69746201-69746220 None:intergenic 50.0%
CCCTCTTAGGAAAGCTTGGA+TGG - chr5.1:69746870-69746889 MS.gene47032:intron 50.0%
GGAAGATTGTCCGGCAAACT+TGG - chr5.1:69747153-69747172 MS.gene47032:intron 50.0%
TAAGGGATCACCTGCAGGAA+AGG - chr5.1:69747299-69747318 MS.gene47032:CDS 50.0%
TGGGTGGGTCAAGGTAGAAA+GGG + chr5.1:69746200-69746219 None:intergenic 50.0%
TTGAATGCATGGGTGGGTCA+AGG + chr5.1:69746209-69746228 None:intergenic 50.0%
! CTAAGAGGGGTATAGCGATG+CGG + chr5.1:69746859-69746878 None:intergenic 50.0%
CGCATCGCTATACCCCTCTT+AGG - chr5.1:69746857-69746876 MS.gene47032:intron 55.0%
CTGGAACAGACCTTTCCTGC+AGG + chr5.1:69747312-69747331 None:intergenic 55.0%
GCGGTGGAACTGATACCTTG+CGG + chr5.1:69746840-69746859 None:intergenic 55.0%
GCTTATTACTCCCTCCGTCC+CGG - chr5.1:69746405-69746424 MS.gene47032:CDS 55.0%
GGGTGGGTCAAGGTAGAAAG+GGG + chr5.1:69746199-69746218 None:intergenic 55.0%
GGTGGGTCAAGGTAGAAAGG+GGG + chr5.1:69746198-69746217 None:intergenic 55.0%
GTCAGTTATTCCGGGACGGA+GGG + chr5.1:69746418-69746437 None:intergenic 55.0%
TGGTCAGGTTCAGTTCCGCA+AGG - chr5.1:69746822-69746841 MS.gene47032:CDS 55.0%
! GGCTCAAACTTCGGCTTTGG+TGG + chr5.1:69746778-69746797 None:intergenic 55.0%
GGTCAGTTATTCCGGGACGG+AGG + chr5.1:69746419-69746438 None:intergenic 60.0%
! AGAGGGGTATAGCGATGCGG+TGG + chr5.1:69746856-69746875 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr5.1 gene 69746187 69747371 69746187 ID=MS.gene47032
chr5.1 mRNA 69746187 69747371 69746187 ID=MS.gene47032.t1;Parent=MS.gene47032
chr5.1 exon 69747286 69747371 69747286 ID=MS.gene47032.t1.exon1;Parent=MS.gene47032.t1
chr5.1 CDS 69747286 69747371 69747286 ID=cds.MS.gene47032.t1;Parent=MS.gene47032.t1
chr5.1 exon 69746187 69746853 69746187 ID=MS.gene47032.t1.exon2;Parent=MS.gene47032.t1
chr5.1 CDS 69746187 69746853 69746187 ID=cds.MS.gene47032.t1;Parent=MS.gene47032.t1
Gene Sequence

>MS.gene47032

ATGTGGGACCCCCTTTCTACCTTGACCCACCCATGCATTCAATCTAGTGCAAAATCTAACGGCCATAATGCTTTCGTGACAGCTTCGTGAGTTTTGTTCTCGGGATAAATAGCATCACCCTATTTAAATAAAACAATCCAAACAGACCTGAATGTTCGGTGAAGTTCTCTGTTGGTATCTAGAACACCTGAAGTAGTACTGGTAGCTAGCTAGATTTTGCTTATTACTCCCTCCGTCCCGGAATAACTGACCCATTTTCTAAAAAAAAGTGTCCCAAAATAACTGACTCATTTCAATTTTCAATACAACTTTCATCATTCCCAATACAATATAACACTAAATAATACTACTTTTATCATTCCCAATACAATATATTTCACTTTCTCCTTTATTTATACACTTTTCTTAATCTGTGTGAAAAACCAAAGTAGGTCAATTAAACCGAGACAGAGCGAGTAACATTTAAATTTTATGTAACATGTTTATATTTTAAATCAATTTTTTGTGCTGTTGTACAGTTGCATAATGCAGTCTAACAAAACATATTCGATGGAAGTTGACACTGTCTCATCTGAATCAAAAGTTTTGCCACCAAAGCCGAAGTTTGAGCCTCTGAAACCTCATGAGATTTCTACTGGTCAGGTTCAGTTCCGCAAGGTATCAGTTCCACCGCATCGCTATACCCCTCTTAGGAAAGCTTGGATGGACATCTATACTCCTATATATGAGCAGATGATGATTGACATCCGTATGAATTTGAAGCCTCGGAAAATTGAGCTGAAGACAAGGCACGATACACCTGATATCAGCAACTTGCAAAAATGTGCTGATTTTGTCCATGCTTTCATGCTTGGTTTTGATGTTATAGATGCTATTGCTCTTCTGCGTTTGGATGAGCTCTATGTTGAGTCCTTTGAGATCAAGGATGTTAAGACACTTCGTGGCGATCACTTGTCACGTGCAATTGGAAGATTGTCCGGCAAACTTGGTAAGACCAAGTTTGCAATTGAGAATGCTTCTAAGACGAGGATTGTGATTGCTGATGCCAAAATTCATATATTGGGATCTTTTGTAAACATTAAGATTGCTAGGGGTTTCCTTTGTGACCTAATTAAGGGATCACCTGCAGGAAAGGTCTGTTCCAGATTGAGAGCAGTTACTTCTAAGCTGGCAGAGAGGTTTTGA
Protein sequence

>MS.gene47032.t1

MWDPLSTLTHPCIQSSAKSNGHNAFVTASCIMQSNKTYSMEVDTVSSESKVLPPKPKFEPLKPHEISTGQVQFRKVSVPPHRYTPLRKAWMDIYTPIYEQMMIDIRMNLKPRKIELKTRHDTPDISNLQKCADFVHAFMLGFDVIDAIALLRLDELYVESFEIKDVKTLRGDHLSRAIGRLSGKLGKTKFAIENASKTRIVIADAKIHILGSFVNIKIARGFLCDLIKGSPAGKVCSRLRAVTSKLAERF