AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene057394


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene057394.t1 MTR_2g042420 97.727 132 3 0 1 132 1 132 2.17e-88 261
MS.gene057394.t1 MTR_2g042370 89.474 133 10 2 4 132 8 140 1.38e-75 228
MS.gene057394.t1 MTR_2g042430 88.148 135 13 1 1 132 17 151 7.48e-75 227
MS.gene057394.t1 MTR_8g074170 33.071 127 75 6 6 124 22 146 2.98e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 30 sgRNAs with CRISPR-Local

Find 43 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAATGGTTAGGAATGGAAAT+TGG 0.237351 2.1:+50729349 MS.gene057394:CDS
TTATCCACACAAACATCTTC+TGG 0.304876 2.1:-50729282 None:intergenic
TTCAAGAGAAACTGGATCTA+TGG 0.319662 2.1:-50729079 None:intergenic
GGAATGGAAATTGGGAGAAT+TGG 0.337340 2.1:+50729358 MS.gene057394:CDS
AGTGGTATTTCAAGAGAAAC+TGG 0.369140 2.1:-50729087 None:intergenic
ATAGATAGCTCTTCTTTGCT+TGG 0.400675 2.1:+50729387 MS.gene057394:CDS
CATCTCTTGTACCTGTATAT+AGG 0.404937 2.1:-50729314 None:intergenic
TAATAGAGTGTGATTAAACT+TGG 0.423287 2.1:+50729240 MS.gene057394:intron
TTACTAAAGGTTACGGAAGA+TGG 0.426711 2.1:+50729637 MS.gene057394:CDS
AATGGTTAGGAATGGAAATT+GGG 0.437047 2.1:+50729350 MS.gene057394:CDS
AGATGGTTGGATTAAAAGAA+TGG 0.447747 2.1:+50729332 MS.gene057394:CDS
GTTGGATTAAAAGAATGGTT+AGG 0.454450 2.1:+50729337 MS.gene057394:CDS
GCAGGGTTTACTAAAGGTTA+CGG 0.469389 2.1:+50729630 MS.gene057394:intron
TATTATGCAGGGTTTACTAA+AGG 0.479194 2.1:+50729624 MS.gene057394:intron
CATTGTTTGTGATACTACCT+TGG 0.491818 2.1:+50729437 MS.gene057394:CDS
AAAGATGGTGTCCTATATAC+AGG 0.496262 2.1:+50729303 MS.gene057394:CDS
GAGAACCATTTACTTGTGAA+AGG 0.496653 2.1:-50729672 None:intergenic
ATTAAAAGAATGGTTAGGAA+TGG 0.506704 2.1:+50729342 MS.gene057394:CDS
TCAAGAGAAACTGGATCTAT+GGG 0.525446 2.1:-50729078 None:intergenic
GGAATCACAACATCTAAAGA+TGG 0.552529 2.1:+50729408 MS.gene057394:CDS
TGTATTACTTAATTTAAGCA+TGG 0.560401 2.1:-50729762 None:intergenic
AGTGTGATTAAACTTGGAGA+AGG 0.571921 2.1:+50729246 MS.gene057394:CDS
TTGGTCGAAGATACAGAAAG+TGG 0.582391 2.1:-50729105 None:intergenic
ATACAGGTACAAGAGATGGT+TGG 0.583282 2.1:+50729319 MS.gene057394:CDS
AATGGCACTAACCTCAAGCT+TGG 0.590599 2.1:+50729008 None:intergenic
CTATATACAGGTACAAGAGA+TGG 0.609427 2.1:+50729315 MS.gene057394:CDS
GATGTTTGTGTGGATAAAGA+TGG 0.610609 2.1:+50729288 MS.gene057394:CDS
ATCACAACATCTAAAGATGG+TGG 0.643963 2.1:+50729411 MS.gene057394:CDS
AGCTGCTAGAACCAAGCTTG+AGG 0.656502 2.1:-50729019 None:intergenic
GCAACCAGAAGATGTTTGTG+TGG 0.684744 2.1:+50729278 MS.gene057394:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TCATAATAAATTATTTGTTT+GGG - chr2.1:50729711-50729730 None:intergenic 10.0%
!! CTCATAATAAATTATTTGTT+TGG - chr2.1:50729712-50729731 None:intergenic 15.0%
!! AACACATAATTATATTATGC+AGG + chr2.1:50729612-50729631 MS.gene057394:intron 20.0%
!! ACACATAATTATATTATGCA+GGG + chr2.1:50729613-50729632 MS.gene057394:intron 20.0%
!!! TAATCATTTAGGATTTATCT+TGG - chr2.1:50729521-50729540 None:intergenic 20.0%
!!! TATGTGTTGTTTAATCATTT+AGG - chr2.1:50729532-50729551 None:intergenic 20.0%
! ATTAAAAGAATGGTTAGGAA+TGG + chr2.1:50729342-50729361 MS.gene057394:CDS 25.0%
! TAATAGAGTGTGATTAAACT+TGG + chr2.1:50729240-50729259 MS.gene057394:intron 25.0%
AATGGTTAGGAATGGAAATT+GGG + chr2.1:50729350-50729369 MS.gene057394:CDS 30.0%
AGATGGTTGGATTAAAAGAA+TGG + chr2.1:50729332-50729351 MS.gene057394:CDS 30.0%
ATGGATGAACTGAACAAAAT+AGG - chr2.1:50729746-50729765 None:intergenic 30.0%
CAAGCATGAATTATTTACCA+AGG - chr2.1:50729457-50729476 None:intergenic 30.0%
CAATTACAGGTGAAAACTTA+AGG + chr2.1:50729135-50729154 MS.gene057394:intron 30.0%
CTTGGTAAATAATTCATGCT+TGG + chr2.1:50729455-50729474 MS.gene057394:intron 30.0%
GTTATCCTTTCACAAGTAAA+TGG + chr2.1:50729667-50729686 MS.gene057394:intron 30.0%
GTTGGATTAAAAGAATGGTT+AGG + chr2.1:50729337-50729356 MS.gene057394:CDS 30.0%
TATTATGCAGGGTTTACTAA+AGG + chr2.1:50729624-50729643 MS.gene057394:intron 30.0%
TTGGACATATATGTGCTTAT+TGG - chr2.1:50729502-50729521 None:intergenic 30.0%
! CTTAAGTTTTCACCTGTAAT+TGG - chr2.1:50729137-50729156 None:intergenic 30.0%
AAAGATGGTGTCCTATATAC+AGG + chr2.1:50729303-50729322 MS.gene057394:CDS 35.0%
AGTGGTATTTCAAGAGAAAC+TGG - chr2.1:50729090-50729109 None:intergenic 35.0%
AGTGTGATTAAACTTGGAGA+AGG + chr2.1:50729246-50729265 MS.gene057394:CDS 35.0%
ATAGATAGCTCTTCTTTGCT+TGG + chr2.1:50729387-50729406 MS.gene057394:CDS 35.0%
ATCACAACATCTAAAGATGG+TGG + chr2.1:50729411-50729430 MS.gene057394:CDS 35.0%
CATCTCTTGTACCTGTATAT+AGG - chr2.1:50729317-50729336 None:intergenic 35.0%
CATTGTTTGTGATACTACCT+TGG + chr2.1:50729437-50729456 MS.gene057394:CDS 35.0%
CTATATACAGGTACAAGAGA+TGG + chr2.1:50729315-50729334 MS.gene057394:CDS 35.0%
GAATGGTTAGGAATGGAAAT+TGG + chr2.1:50729349-50729368 MS.gene057394:CDS 35.0%
GACCAAAAACAACCAATTAC+AGG + chr2.1:50729122-50729141 MS.gene057394:CDS 35.0%
GAGAACCATTTACTTGTGAA+AGG - chr2.1:50729675-50729694 None:intergenic 35.0%
GATGTTTGTGTGGATAAAGA+TGG + chr2.1:50729288-50729307 MS.gene057394:CDS 35.0%
GGAATCACAACATCTAAAGA+TGG + chr2.1:50729408-50729427 MS.gene057394:CDS 35.0%
TCAAGAGAAACTGGATCTAT+GGG - chr2.1:50729081-50729100 None:intergenic 35.0%
TTACTAAAGGTTACGGAAGA+TGG + chr2.1:50729637-50729656 MS.gene057394:CDS 35.0%
TTATCCACACAAACATCTTC+TGG - chr2.1:50729285-50729304 None:intergenic 35.0%
TTCAAGAGAAACTGGATCTA+TGG - chr2.1:50729082-50729101 None:intergenic 35.0%
!! CACCTGTAATTGGTTGTTTT+TGG - chr2.1:50729127-50729146 None:intergenic 35.0%
ATACAGGTACAAGAGATGGT+TGG + chr2.1:50729319-50729338 MS.gene057394:CDS 40.0%
GCAGGGTTTACTAAAGGTTA+CGG + chr2.1:50729630-50729649 MS.gene057394:intron 40.0%
GGAATGGAAATTGGGAGAAT+TGG + chr2.1:50729358-50729377 MS.gene057394:CDS 40.0%
TTGGTCGAAGATACAGAAAG+TGG - chr2.1:50729108-50729127 None:intergenic 40.0%
GCAACCAGAAGATGTTTGTG+TGG + chr2.1:50729278-50729297 MS.gene057394:CDS 45.0%
AGCTGCTAGAACCAAGCTTG+AGG - chr2.1:50729022-50729041 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 50729009 50729771 50729009 ID=MS.gene057394
chr2.1 mRNA 50729009 50729771 50729009 ID=MS.gene057394.t1;Parent=MS.gene057394
chr2.1 exon 50729009 50729143 50729009 ID=MS.gene057394.t1.exon1;Parent=MS.gene057394.t1
chr2.1 CDS 50729009 50729143 50729009 ID=cds.MS.gene057394.t1;Parent=MS.gene057394.t1
chr2.1 exon 50729246 50729458 50729246 ID=MS.gene057394.t1.exon2;Parent=MS.gene057394.t1
chr2.1 CDS 50729246 50729458 50729246 ID=cds.MS.gene057394.t1;Parent=MS.gene057394.t1
chr2.1 exon 50729634 50729681 50729634 ID=MS.gene057394.t1.exon3;Parent=MS.gene057394.t1
chr2.1 CDS 50729634 50729681 50729634 ID=cds.MS.gene057394.t1;Parent=MS.gene057394.t1
chr2.1 exon 50729757 50729771 50729757 ID=MS.gene057394.t1.exon4;Parent=MS.gene057394.t1
chr2.1 CDS 50729757 50729771 50729757 ID=cds.MS.gene057394.t1;Parent=MS.gene057394.t1
Gene Sequence

>MS.gene057394

ATGGCACTAACCTCAAGCTTGGTTCTAGCAGCTTTAGTTGCTCTCACAGTTCAAGTCTTCTACTTCTCACCCATAGATCCAGTTTCTCTTGAAATACCACTTTCTGTATCTTCGACCAAAAACAACCAATTACAGGTGAAAACTTAAGGAATACTTGTTATAGCTAGTCTGCAAAATATTTTGTATTTAACTATATTTATCATGTATATGATATCTAATTATATTATTTCTTAATAGAGTGTGATTAAACTTGGAGAAGGATTTCTGAAGCAACCAGAAGATGTTTGTGTGGATAAAGATGGTGTCCTATATACAGGTACAAGAGATGGTTGGATTAAAAGAATGGTTAGGAATGGAAATTGGGAGAATTGGAAGCATATAGATAGCTCTTCTTTGCTTGGAATCACAACATCTAAAGATGGTGGTCTCATTGTTTGTGATACTACCTTGGTAAATAATTCATGCTTGGATTTAATTACTTTATTGAATTCCAATAAGCACATATATGTCCAAGATAAATCCTAAATGATTAAACAACACATATATACAACGATATACTAAGATTCAGTCTTTGTCGATTTAAGTAGTAAAATAAAAAAAATTAACACATAATTATATTATGCAGGGTTTACTAAAGGTTACGGAAGATGGTTTCAGTGTTATCCTTTCACAAGTAAATGGTTCTCAATTAATGTGAGTCCCAAACAAATAATTTATTATGAGTATATTGCTTTCCTATTTTGTTCAGTTCATCCATGCTTAA

Protein sequence

>MS.gene057394.t1

MALTSSLVLAALVALTVQVFYFSPIDPVSLEIPLSVSSTKNNQLQSVIKLGEGFLKQPEDVCVDKDGVLYTGTRDGWIKRMVRNGNWENWKHIDSSSLLGITTSKDGGLIVCDTTLGLLKVTEDGFSVILSQFIHA