AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene37608

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene37608.t1 MTR_3g061130 86.792 212 28 0 8 219 5 216 8.29e-136 380
MS.gene37608.t1 MTR_5g088410 68.950 219 37 4 1 219 1 188 1.09e-92 270
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene37608.t1 AT3G13230 73.709 213 56 0 5 217 3 215 3.07e-119 338
MS.gene37608.t1 AT3G13230 73.709 213 56 0 5 217 3 215 3.07e-119 338

Find 49 sgRNAs with CRISPR-Local

Find 51 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGATCCCAATATATGAATTT+TGG 0.167840 5.3:+71203823 None:intergenic
TTTCCTTTGTGACCTAATTA+AGG 0.193992 5.3:-71203774 MS.gene37608:CDS
TGATGCCAAAATTCATATAT+TGG 0.231356 5.3:-71203828 MS.gene37608:CDS
CTGCAGGTGATCCCTTAATT+AGG 0.312167 5.3:+71203762 None:intergenic
TGCTATTGCTCTTCTGCGTT+TGG 0.322637 5.3:-71203999 MS.gene37608:CDS
CTTAGTCTTACCAAGTTTGC+CGG 0.355751 5.3:+71203892 None:intergenic
TTTGTCCATGCTTTCATGCT+TGG 0.366098 5.3:-71204037 MS.gene37608:CDS
AGAGGCTCAAACTTCGGCTT+TGG 0.381347 5.3:+71204277 None:intergenic
TTCCTTTGTGACCTAATTAA+GGG 0.390563 5.3:-71203773 MS.gene37608:CDS
CGCATCGCTATACCCCTCTT+AGG 0.397983 5.3:-71204198 MS.gene37608:CDS
AGAAGTAACTGCTCTCAATC+TGG 0.402249 5.3:+71203727 None:intergenic
GATGCCAAAATTCATATATT+GGG 0.412346 5.3:-71203827 MS.gene37608:CDS
TCATGAGATTTCTACTGGTC+AGG 0.417970 5.3:-71204248 MS.gene37608:CDS
TCCGAGGCTTCAAATTCATT+CGG 0.426646 5.3:+71204122 None:intergenic
TGTTGAGTCCTTTGAGATCA+AGG 0.427401 5.3:-71203966 MS.gene37608:CDS
GGCTCAAACTTCGGCTTTGG+TGG 0.437317 5.3:+71204280 None:intergenic
GGAAGATTGTCCGGCAAACT+TGG 0.443007 5.3:-71203902 MS.gene37608:CDS
CGTGCAATTGGAAGATTGTC+CGG 0.459600 5.3:-71203911 MS.gene37608:CDS
GATCACTTGTCACGTGCAAT+TGG 0.463391 5.3:-71203923 MS.gene37608:CDS
TTGTAAACATTAAGATTGCT+AGG 0.464495 5.3:-71203799 MS.gene37608:CDS
ATCATCATCTGCTCATATAT+AGG 0.466120 5.3:+71204151 None:intergenic
TCCGAATGAATTTGAAGCCT+CGG 0.466292 5.3:-71204123 MS.gene37608:CDS
TGTAAACATTAAGATTGCTA+GGG 0.485384 5.3:-71203798 MS.gene37608:CDS
CCCTCTTAGGAAAGCTTGGA+TGG 0.488099 5.3:-71204185 MS.gene37608:CDS
GGTTTCAGAGGCTCAAACTT+CGG 0.488900 5.3:+71204271 None:intergenic
TCCATCCAAGCTTTCCTAAG+AGG 0.494180 5.3:+71204184 None:intergenic
GAGAGCAGTTACTTCTAAGC+TGG 0.504373 5.3:-71203720 MS.gene37608:CDS
CTAATTAAGGGATCACCTGC+AGG 0.506285 5.3:-71203761 MS.gene37608:CDS
ATACCCCTCTTAGGAAAGCT+TGG 0.506546 5.3:-71204189 MS.gene37608:CDS
CCATCCAAGCTTTCCTAAGA+GGG 0.509832 5.3:+71204185 None:intergenic
AAACCTCATGAGATTTCTAC+TGG 0.521426 5.3:-71204253 MS.gene37608:CDS
AAGGATGTTAAGACACTTCG+TGG 0.522124 5.3:-71203947 MS.gene37608:CDS
TAAGGGATCACCTGCAGGAA+AGG 0.533097 5.3:-71203756 MS.gene37608:CDS
CTGGAACAGACCTTTCCTGC+AGG 0.538321 5.3:+71203746 None:intergenic
GTCTAACAAAACATATTCGA+TGG 0.546689 5.3:-71204338 MS.gene37608:CDS
CAAAACCAAGCATGAAAGCA+TGG 0.604734 5.3:+71204032 None:intergenic
CTTAACATCCTTGATCTCAA+AGG 0.606154 5.3:+71203958 None:intergenic
GAAATCTCATGAGGTTTCAG+AGG 0.613445 5.3:+71204259 None:intergenic
GTAAACATTAAGATTGCTAG+GGG 0.620738 5.3:-71203797 MS.gene37608:CDS
GGAAAATTGAGCTGAAGACG+AGG 0.621041 5.3:-71204102 MS.gene37608:CDS
ATCCCTTAATTAGGTCACAA+AGG 0.627414 5.3:+71203771 None:intergenic
TTGAGAATGCTTCTAAGACG+AGG 0.657784 5.3:-71203862 MS.gene37608:CDS
AGAGGGGTATAGCGATGCGG+TGG 0.669136 5.3:+71204202 None:intergenic
TGGTCAGGTTCAGTTCCGCA+AGG 0.669299 5.3:-71204233 MS.gene37608:CDS
CATCCAAGCTTTCCTAAGAG+GGG 0.671655 5.3:+71204186 None:intergenic
TGACCAGTAGAAATCTCATG+AGG 0.705113 5.3:+71204250 None:intergenic
CTAAGAGGGGTATAGCGATG+CGG 0.719010 5.3:+71204199 None:intergenic
TTACTTCTAAGCTGGCAGAG+AGG 0.721447 5.3:-71203712 MS.gene37608:CDS
GCGGTGGAACTGATACCTTG+CGG 0.766529 5.3:+71204218 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! GATGCCAAAATTCATATATT+GGG - chr5.3:71204222-71204241 MS.gene37608:CDS 25.0%
! TGATGCCAAAATTCATATAT+TGG - chr5.3:71204221-71204240 MS.gene37608:CDS 25.0%
! TGTAAACATTAAGATTGCTA+GGG - chr5.3:71204251-71204270 MS.gene37608:CDS 25.0%
! TTGTAAACATTAAGATTGCT+AGG - chr5.3:71204250-71204269 MS.gene37608:CDS 25.0%
!! AGATCCCAATATATGAATTT+TGG + chr5.3:71204229-71204248 None:intergenic 25.0%
ATCATCATCTGCTCATATAT+AGG + chr5.3:71203901-71203920 None:intergenic 30.0%
GTAAACATTAAGATTGCTAG+GGG - chr5.3:71204252-71204271 MS.gene37608:CDS 30.0%
GTCTAACAAAACATATTCGA+TGG - chr5.3:71203711-71203730 MS.gene37608:CDS 30.0%
TTCCTTTGTGACCTAATTAA+GGG - chr5.3:71204276-71204295 MS.gene37608:CDS 30.0%
TTTCCTTTGTGACCTAATTA+AGG - chr5.3:71204275-71204294 MS.gene37608:CDS 30.0%
AAACCTCATGAGATTTCTAC+TGG - chr5.3:71203796-71203815 MS.gene37608:CDS 35.0%
ATCCCTTAATTAGGTCACAA+AGG + chr5.3:71204281-71204300 None:intergenic 35.0%
CTTAACATCCTTGATCTCAA+AGG + chr5.3:71204094-71204113 None:intergenic 35.0%
! TTTTGCAAGTTGCTGATATC+AGG + chr5.3:71203982-71204001 None:intergenic 35.0%
AAGGATGTTAAGACACTTCG+TGG - chr5.3:71204102-71204121 MS.gene37608:CDS 40.0%
AGAAGTAACTGCTCTCAATC+TGG + chr5.3:71204325-71204344 None:intergenic 40.0%
CAAAACCAAGCATGAAAGCA+TGG + chr5.3:71204020-71204039 None:intergenic 40.0%
GAAATCTCATGAGGTTTCAG+AGG + chr5.3:71203793-71203812 None:intergenic 40.0%
TCATGAGATTTCTACTGGTC+AGG - chr5.3:71203801-71203820 MS.gene37608:CDS 40.0%
TCCGAGGCTTCAAATTCATT+CGG + chr5.3:71203930-71203949 None:intergenic 40.0%
TGACCAGTAGAAATCTCATG+AGG + chr5.3:71203802-71203821 None:intergenic 40.0%
TTTGTCCATGCTTTCATGCT+TGG - chr5.3:71204012-71204031 MS.gene37608:CDS 40.0%
! TCCGAATGAATTTGAAGCCT+CGG - chr5.3:71203926-71203945 MS.gene37608:CDS 40.0%
!! CTTAGTCTTACCAAGTTTGC+CGG + chr5.3:71204160-71204179 None:intergenic 40.0%
!! TGTTGAGTCCTTTGAGATCA+AGG - chr5.3:71204083-71204102 MS.gene37608:CDS 40.0%
!! TTGAGAATGCTTCTAAGACG+AGG - chr5.3:71204187-71204206 MS.gene37608:CDS 40.0%
ATACCCCTCTTAGGAAAGCT+TGG - chr5.3:71203860-71203879 MS.gene37608:CDS 45.0%
CATCCAAGCTTTCCTAAGAG+GGG + chr5.3:71203866-71203885 None:intergenic 45.0%
CCATCCAAGCTTTCCTAAGA+GGG + chr5.3:71203867-71203886 None:intergenic 45.0%
CGTGCAATTGGAAGATTGTC+CGG - chr5.3:71204138-71204157 MS.gene37608:CDS 45.0%
CTAATTAAGGGATCACCTGC+AGG - chr5.3:71204288-71204307 MS.gene37608:CDS 45.0%
CTGCAGGTGATCCCTTAATT+AGG + chr5.3:71204290-71204309 None:intergenic 45.0%
GAGAGCAGTTACTTCTAAGC+TGG - chr5.3:71204329-71204348 MS.gene37608:CDS 45.0%
GATCACTTGTCACGTGCAAT+TGG - chr5.3:71204126-71204145 MS.gene37608:CDS 45.0%
GGAAAATTGAGCTGAAGACG+AGG - chr5.3:71203947-71203966 MS.gene37608:CDS 45.0%
GGTTTCAGAGGCTCAAACTT+CGG + chr5.3:71203781-71203800 None:intergenic 45.0%
TCCATCCAAGCTTTCCTAAG+AGG + chr5.3:71203868-71203887 None:intergenic 45.0%
TGCTATTGCTCTTCTGCGTT+TGG - chr5.3:71204050-71204069 MS.gene37608:CDS 45.0%
TTACTTCTAAGCTGGCAGAG+AGG - chr5.3:71204337-71204356 MS.gene37608:CDS 45.0%
! GTCTTCAGCTCAATTTTCCG+AGG + chr5.3:71203946-71203965 None:intergenic 45.0%
AGAGGCTCAAACTTCGGCTT+TGG + chr5.3:71203775-71203794 None:intergenic 50.0%
CCCTCTTAGGAAAGCTTGGA+TGG - chr5.3:71203864-71203883 MS.gene37608:CDS 50.0%
GGAAGATTGTCCGGCAAACT+TGG - chr5.3:71204147-71204166 MS.gene37608:CDS 50.0%
TAAGGGATCACCTGCAGGAA+AGG - chr5.3:71204293-71204312 MS.gene37608:CDS 50.0%
! CTAAGAGGGGTATAGCGATG+CGG + chr5.3:71203853-71203872 None:intergenic 50.0%
CGCATCGCTATACCCCTCTT+AGG - chr5.3:71203851-71203870 MS.gene37608:CDS 55.0%
CTGGAACAGACCTTTCCTGC+AGG + chr5.3:71204306-71204325 None:intergenic 55.0%
GCGGTGGAACTGATACCTTG+CGG + chr5.3:71203834-71203853 None:intergenic 55.0%
TGGTCAGGTTCAGTTCCGCA+AGG - chr5.3:71203816-71203835 MS.gene37608:CDS 55.0%
! GGCTCAAACTTCGGCTTTGG+TGG + chr5.3:71203772-71203791 None:intergenic 55.0%
! AGAGGGGTATAGCGATGCGG+TGG + chr5.3:71203850-71203869 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr5.3 gene 71203706 71204365 71203706 ID=MS.gene37608
chr5.3 mRNA 71203706 71204365 71203706 ID=MS.gene37608.t1;Parent=MS.gene37608
chr5.3 exon 71203706 71204365 71203706 ID=MS.gene37608.t1.exon1;Parent=MS.gene37608.t1
chr5.3 CDS 71203706 71204365 71203706 ID=cds.MS.gene37608.t1;Parent=MS.gene37608.t1
Gene Sequence

>MS.gene37608

ATGCAGTCTAACAAAACATATTCGATGGAAGTTGACACTGTCTCATCTGAATCAAAAGTTTTGCCACCAAAGCCGAAGTTTGAGCCTCTGAAACCTCATGAGATTTCTACTGGTCAGGTTCAGTTCCGCAAGGTATCAGTTCCACCGCATCGCTATACCCCTCTTAGGAAAGCTTGGATGGACATCTATACTCCTATATATGAGCAGATGATGATTGACATCCGAATGAATTTGAAGCCTCGGAAAATTGAGCTGAAGACGAGGCACGATACACCTGATATCAGCAACTTGCAAAAATGTGCTGATTTTGTCCATGCTTTCATGCTTGGTTTTGATGTTATAGATGCTATTGCTCTTCTGCGTTTGGATGAGCTCTATGTTGAGTCCTTTGAGATCAAGGATGTTAAGACACTTCGTGGCGATCACTTGTCACGTGCAATTGGAAGATTGTCCGGCAAACTTGGTAAGACTAAGTTTGCAATTGAGAATGCTTCTAAGACGAGGATTGTGATTGCTGATGCCAAAATTCATATATTGGGATCTTTTGTAAACATTAAGATTGCTAGGGGTTTCCTTTGTGACCTAATTAAGGGATCACCTGCAGGAAAGGTCTGTTCCAGATTGAGAGCAGTTACTTCTAAGCTGGCAGAGAGGTTTTGA
Protein sequence

>MS.gene37608.t1

MQSNKTYSMEVDTVSSESKVLPPKPKFEPLKPHEISTGQVQFRKVSVPPHRYTPLRKAWMDIYTPIYEQMMIDIRMNLKPRKIELKTRHDTPDISNLQKCADFVHAFMLGFDVIDAIALLRLDELYVESFEIKDVKTLRGDHLSRAIGRLSGKLGKTKFAIENASKTRIVIADAKIHILGSFVNIKIARGFLCDLIKGSPAGKVCSRLRAVTSKLAERF