AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene36987


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

Find 44 sgRNAs with CRISPR-Local

Find 72 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTATGTGTAGTTCATCTTAC+TGG 0.238754 8.3:+75255663 None:intergenic
TTTGCAGGGCATGTTGTTAA+AGG 0.282244 8.3:+75256135 MS.gene36987:intron
GCATTAGGAGGAATCTGTTT+TGG 0.336181 8.3:-75256249 None:intergenic
ATGATGTTGAGCTACTTTCT+TGG 0.389571 8.3:+75256283 MS.gene36987:CDS
GAGTTAGCTTACGGTGGATC+TGG 0.427641 8.3:+75256219 MS.gene36987:CDS
AGGGCATGTTGTTAAAGGTT+TGG 0.430416 8.3:+75256140 MS.gene36987:intron
TAAAACTTCGTCGAGATCCT+TGG 0.432037 8.3:-75256382 None:intergenic
AAAACTTCGTCGAGATCCTT+GGG 0.439920 8.3:-75256381 None:intergenic
CTCAGGTGGAATGGTGAAAA+GGG 0.451099 8.3:-75256199 None:intergenic
GAAGCGCATCTTCTTGATGA+TGG 0.458875 8.3:+75256503 MS.gene36987:CDS
AGGATGGAGGTCTGTTCAAA+AGG 0.469504 8.3:+75256328 MS.gene36987:CDS
TCATATCGCAGAGTTGCATT+AGG 0.476139 8.3:-75256264 None:intergenic
GGAACAACTGCTTTCACGCT+TGG 0.480449 8.3:+75255720 MS.gene36987:CDS
TAGTGTGGAGGATATATGTA+AGG 0.483756 8.3:+75256308 MS.gene36987:CDS
ACTCAGGTGGAATGGTGAAA+AGG 0.488523 8.3:-75256200 None:intergenic
GGCTGTTAGAACTATGAAGA+AGG 0.495009 8.3:+75256692 MS.gene36987:CDS
GTTGTTAAAGGTTTGGCTGA+TGG 0.497585 8.3:+75256147 MS.gene36987:CDS
GTGGAGGATATATGTAAGGA+TGG 0.507772 8.3:+75256312 MS.gene36987:CDS
GCTACTTTCTTGGTTTAGTG+TGG 0.510353 8.3:+75256293 MS.gene36987:CDS
GTTCAAAAGGATACTTAAGA+AGG 0.515459 8.3:+75256341 MS.gene36987:CDS
TATGAAGAAGGGAGAGGAAG+CGG 0.515658 8.3:+75256704 MS.gene36987:CDS
CTTACTGGAACGGTGCTCAA+TGG 0.522170 8.3:+75255678 MS.gene36987:CDS
ATTCCACCTGAGTTAGCTTA+CGG 0.523205 8.3:+75256210 MS.gene36987:CDS
TGGAACGGTGCTCAATGGTA+TGG 0.523692 8.3:+75255683 MS.gene36987:CDS
TTCAAAAGGATACTTAAGAA+GGG 0.525833 8.3:+75256342 MS.gene36987:CDS
TCAAAAGGATACTTAAGAAG+GGG 0.534358 8.3:+75256343 MS.gene36987:CDS
ACTTTCTTGGTTTAGTGTGG+AGG 0.539462 8.3:+75256296 MS.gene36987:CDS
TAGAACTATGAAGAAGGGAG+AGG 0.561771 8.3:+75256698 MS.gene36987:CDS
ACTGCTTTCACGCTTGGACG+AGG 0.568567 8.3:+75255726 MS.gene36987:CDS
GTAAGCTAACTCAGGTGGAA+TGG 0.570045 8.3:-75256208 None:intergenic
TATCGCAGAGTTGCATTAGG+AGG 0.592105 8.3:-75256261 None:intergenic
GCTGTTAGAACTATGAAGAA+GGG 0.592887 8.3:+75256693 MS.gene36987:CDS
AGCTAAGTCTGATAAAGTAG+TGG 0.597666 8.3:+75256535 MS.gene36987:CDS
GAGGATATATGTAAGGATGG+AGG 0.602521 8.3:+75256315 MS.gene36987:CDS
TGTAGTTCATCTTACTGGAA+CGG 0.623849 8.3:+75255668 None:intergenic
CCACCGTAAGCTAACTCAGG+TGG 0.626637 8.3:-75256213 None:intergenic
CTAACAGCCATTGACAATGC+AGG 0.627352 8.3:-75256678 None:intergenic
CCACCTGAGTTAGCTTACGG+TGG 0.631439 8.3:+75256213 MS.gene36987:CDS
CAAAAGGATACTTAAGAAGG+GGG 0.634594 8.3:+75256344 MS.gene36987:CDS
AGTAGTGGAGTTCACAGTGA+AGG 0.642347 8.3:+75256550 MS.gene36987:CDS
GATCCACCGTAAGCTAACTC+AGG 0.659750 8.3:-75256216 None:intergenic
GTGGAGTTCACAGTGAAGGA+CGG 0.666408 8.3:+75256554 MS.gene36987:CDS
GGAGAAATGGGAAAATCCCA+AGG 0.667575 8.3:+75256365 MS.gene36987:CDS
GGTATGGAGTTTGAATCTAG+CGG 0.700618 8.3:+75255699 MS.gene36987:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTAGTTTCTTTATTTGATTT+AGG + chr8.3:75255787-75255806 MS.gene36987:intron 15.0%
!! CAATCAAATATAGAAACTAA+CGG - chr8.3:75255826-75255845 None:intergenic 20.0%
!!! ATTTGATTTAGGTTTATGTT+TGG + chr8.3:75255798-75255817 MS.gene36987:intron 20.0%
! AACAATGAAAAAAGGTGAAA+AGG + chr8.3:75256176-75256195 MS.gene36987:CDS 25.0%
! TTCAAAAGGATACTTAAGAA+GGG + chr8.3:75256342-75256361 MS.gene36987:CDS 25.0%
!! CGTTAGTTTCTATATTTGAT+TGG + chr8.3:75255824-75255843 MS.gene36987:intron 25.0%
!!! TCGGTTTTGATTTGATTAAT+TGG + chr8.3:75255759-75255778 MS.gene36987:intron 25.0%
AATTCTGTCTTATCATTGTC+TGG + chr8.3:75256087-75256106 MS.gene36987:intron 30.0%
GGTGTGAAAACAATGAAAAA+AGG + chr8.3:75256168-75256187 MS.gene36987:CDS 30.0%
GTTCAAAAGGATACTTAAGA+AGG + chr8.3:75256341-75256360 MS.gene36987:CDS 30.0%
TAGAGTCACTCAATGAAAAA+TGG - chr8.3:75256431-75256450 None:intergenic 30.0%
TCAAAAGGATACTTAAGAAG+GGG + chr8.3:75256343-75256362 MS.gene36987:CDS 30.0%
TTGATTATAGTAGTCAGTAG+CGG + chr8.3:75255855-75255874 MS.gene36987:intron 30.0%
! AGTGCGAACAAATTTTATCA+TGG + chr8.3:75256579-75256598 MS.gene36987:intron 30.0%
!!! AAGTAATGTGTTGATTTTGC+AGG + chr8.3:75256120-75256139 MS.gene36987:intron 30.0%
!!! AGTAATGTGTTGATTTTGCA+GGG + chr8.3:75256121-75256140 MS.gene36987:intron 30.0%
AATTCACTGCAACAACAGAA+GGG - chr8.3:75256481-75256500 None:intergenic 35.0%
AGCTAAGTCTGATAAAGTAG+TGG + chr8.3:75256535-75256554 MS.gene36987:CDS 35.0%
CAAAAGGATACTTAAGAAGG+GGG + chr8.3:75256344-75256363 MS.gene36987:CDS 35.0%
GCTGTTAGAACTATGAAGAA+GGG + chr8.3:75256693-75256712 MS.gene36987:CDS 35.0%
TAATTCACTGCAACAACAGA+AGG - chr8.3:75256482-75256501 None:intergenic 35.0%
TAGTGTGGAGGATATATGTA+AGG + chr8.3:75256308-75256327 MS.gene36987:CDS 35.0%
TATAATGTTCACCATGAGAC+AGG + chr8.3:75256645-75256664 MS.gene36987:intron 35.0%
! ATGATGTTGAGCTACTTTCT+TGG + chr8.3:75256283-75256302 MS.gene36987:CDS 35.0%
! TTTTTGTCCTGCATTGTCAA+TGG + chr8.3:75256671-75256690 MS.gene36987:CDS 35.0%
AAAACTTCGTCGAGATCCTT+GGG - chr8.3:75256384-75256403 None:intergenic 40.0%
ACTTAAGAAGGGGGAGAAAT+GGG + chr8.3:75256353-75256372 MS.gene36987:CDS 40.0%
ACTTTCTTGGTTTAGTGTGG+AGG + chr8.3:75256296-75256315 MS.gene36987:CDS 40.0%
AGGGCATGTTGTTAAAGGTT+TGG + chr8.3:75256140-75256159 MS.gene36987:intron 40.0%
GACAAAAATGACCTGTCTCA+TGG - chr8.3:75256659-75256678 None:intergenic 40.0%
GAGGATATATGTAAGGATGG+AGG + chr8.3:75256315-75256334 MS.gene36987:CDS 40.0%
GGCTGTTAGAACTATGAAGA+AGG + chr8.3:75256692-75256711 MS.gene36987:CDS 40.0%
GGTATGGAGTTTGAATCTAG+CGG + chr8.3:75255699-75255718 MS.gene36987:CDS 40.0%
GTGGAGGATATATGTAAGGA+TGG + chr8.3:75256312-75256331 MS.gene36987:CDS 40.0%
GTTGTTAAAGGTTTGGCTGA+TGG + chr8.3:75256147-75256166 MS.gene36987:CDS 40.0%
TAAAACTTCGTCGAGATCCT+TGG - chr8.3:75256385-75256404 None:intergenic 40.0%
TACTTAAGAAGGGGGAGAAA+TGG + chr8.3:75256352-75256371 MS.gene36987:CDS 40.0%
TAGAACTATGAAGAAGGGAG+AGG + chr8.3:75256698-75256717 MS.gene36987:CDS 40.0%
TCATATCGCAGAGTTGCATT+AGG - chr8.3:75256267-75256286 None:intergenic 40.0%
TTTGCAGGGCATGTTGTTAA+AGG + chr8.3:75256135-75256154 MS.gene36987:intron 40.0%
! AAGGATCTCGACGAAGTTTT+AGG + chr8.3:75256384-75256403 MS.gene36987:CDS 40.0%
! ATTCCACCTGAGTTAGCTTA+CGG + chr8.3:75256210-75256229 MS.gene36987:CDS 40.0%
! GCATTAGGAGGAATCTGTTT+TGG - chr8.3:75256252-75256271 None:intergenic 40.0%
! GCTACTTTCTTGGTTTAGTG+TGG + chr8.3:75256293-75256312 MS.gene36987:CDS 40.0%
ACTCAGGTGGAATGGTGAAA+AGG - chr8.3:75256203-75256222 None:intergenic 45.0%
AGGATGGAGGTCTGTTCAAA+AGG + chr8.3:75256328-75256347 MS.gene36987:CDS 45.0%
CTAACAGCCATTGACAATGC+AGG - chr8.3:75256681-75256700 None:intergenic 45.0%
CTCAGGTGGAATGGTGAAAA+GGG - chr8.3:75256202-75256221 None:intergenic 45.0%
GAAGCGCATCTTCTTGATGA+TGG + chr8.3:75256503-75256522 MS.gene36987:CDS 45.0%
GGAGAAATGGGAAAATCCCA+AGG + chr8.3:75256365-75256384 MS.gene36987:CDS 45.0%
GTAAGCTAACTCAGGTGGAA+TGG - chr8.3:75256211-75256230 None:intergenic 45.0%
TATCGCAGAGTTGCATTAGG+AGG - chr8.3:75256264-75256283 None:intergenic 45.0%
TATGAAGAAGGGAGAGGAAG+CGG + chr8.3:75256704-75256723 MS.gene36987:CDS 45.0%
TGGACGAGGTGCGTATTAAT+CGG + chr8.3:75255740-75255759 MS.gene36987:intron 45.0%
! AGTAGTGGAGTTCACAGTGA+AGG + chr8.3:75256550-75256569 MS.gene36987:CDS 45.0%
CACTAATCGTTGTAGCGGTG+CGG + chr8.3:75255926-75255945 MS.gene36987:intron 50.0%
CGCGACACTAATCGTTGTAG+CGG + chr8.3:75255921-75255940 MS.gene36987:intron 50.0%
CGCTACAACGATTAGTGTCG+CGG - chr8.3:75255923-75255942 None:intergenic 50.0%
CTTACTGGAACGGTGCTCAA+TGG + chr8.3:75255678-75255697 MS.gene36987:CDS 50.0%
GATCCACCGTAAGCTAACTC+AGG - chr8.3:75256219-75256238 None:intergenic 50.0%
GGAACAACTGCTTTCACGCT+TGG + chr8.3:75255720-75255739 MS.gene36987:CDS 50.0%
GTGGAGTTCACAGTGAAGGA+CGG + chr8.3:75256554-75256573 MS.gene36987:CDS 50.0%
TGGAACGGTGCTCAATGGTA+TGG + chr8.3:75255683-75255702 MS.gene36987:CDS 50.0%
! GAGTTAGCTTACGGTGGATC+TGG + chr8.3:75256219-75256238 MS.gene36987:CDS 50.0%
ACTGCTTTCACGCTTGGACG+AGG + chr8.3:75255726-75255745 MS.gene36987:CDS 55.0%
AGCCGCTTCAGCTGCTATAG+CGG + chr8.3:75255957-75255976 MS.gene36987:intron 55.0%
CCACCGTAAGCTAACTCAGG+TGG - chr8.3:75256216-75256235 None:intergenic 55.0%
TGCCGCTATAGCAGCTGAAG+CGG - chr8.3:75255962-75255981 None:intergenic 55.0%
! CCACCTGAGTTAGCTTACGG+TGG + chr8.3:75256213-75256232 MS.gene36987:CDS 55.0%
TGTCGCGGTTCGTCATCGCG+CGG - chr8.3:75255908-75255927 None:intergenic 65.0%
TCACCGCTACGCTACGCGCG+CGG - chr8.3:75255881-75255900 None:intergenic 70.0%
! CGGCCGCGCGCGTAGCGTAG+CGG + chr8.3:75255875-75255894 MS.gene36987:intron 80.0%


Chromosome Type Strat End Strand Name
chr8.3 gene 75255673 75256747 75255673 ID=MS.gene36987
chr8.3 mRNA 75255673 75256747 75255673 ID=MS.gene36987.t1;Parent=MS.gene36987
chr8.3 exon 75255673 75255747 75255673 ID=MS.gene36987.t1.exon1;Parent=MS.gene36987.t1
chr8.3 CDS 75255673 75255747 75255673 ID=cds.MS.gene36987.t1;Parent=MS.gene36987.t1
chr8.3 exon 75256142 75256405 75256142 ID=MS.gene36987.t1.exon2;Parent=MS.gene36987.t1
chr8.3 CDS 75256142 75256405 75256142 ID=cds.MS.gene36987.t1;Parent=MS.gene36987.t1
chr8.3 exon 75256495 75256575 75256495 ID=MS.gene36987.t1.exon3;Parent=MS.gene36987.t1
chr8.3 CDS 75256495 75256575 75256495 ID=cds.MS.gene36987.t1;Parent=MS.gene36987.t1
chr8.3 exon 75256667 75256747 75256667 ID=MS.gene36987.t1.exon4;Parent=MS.gene36987.t1
chr8.3 CDS 75256667 75256747 75256667 ID=cds.MS.gene36987.t1;Parent=MS.gene36987.t1
Gene Sequence

>MS.gene36987

TTCATCTTACTGGAACGGTGCTCAATGGTATGGAGTTTGAATCTAGCGGAACAACTGCTTTCACGCTTGGACGAGGTGCGTATTAATCGGTTTTGATTTGATTAATTGGATCATTTAGTTTCTTTATTTGATTTAGGTTTATGTTTGGATCCGTTAGTTTCTATATTTGATTGGTAGCTGTTTTGATTATAGTAGTCAGTAGCGGCCGCGCGCGTAGCGTAGCGGTGACGAACCGCGCGATGACGAACCGCGACACTAATCGTTGTAGCGGTGCGGAATGAGACAGCCGCTTCAGCTGCTATAGCGGCATAGTTATTAAATATATTTTTATTTTTATTTTTTTTAGAAATATATAAGTTTGTTTATACTTTATTATTCATGTAATTTGTTCAAAATGAAATTGTATATGTTGAAAATTCTGTCTTATCATTGTCTGGATTTGTTTCTAAGTAATGTGTTGATTTTGCAGGGCATGTTGTTAAAGGTTTGGCTGATGGTGTGAAAACAATGAAAAAAGGTGAAAAGGCCCTTTTCACCATTCCACCTGAGTTAGCTTACGGTGGATCTGGTTATCTTCCAAAACAGATTCCTCCTAATGCAACTCTGCGATATGATGTTGAGCTACTTTCTTGGTTTAGTGTGGAGGATATATGTAAGGATGGAGGTCTGTTCAAAAGGATACTTAAGAAGGGGGAGAAATGGGAAAATCCCAAGGATCTCGACGAAGTTTTAGGTAAACATATTACGAGTATATTCCATTTTTCATTGAGTGACTCTATTATTTGACTGTGTTAACTATAAAACACCCTTCTGTTGTTGCAGTGAATTATGAAGCGCATCTTCTTGATGATGGAAAACTAGTAGCTAAGTCTGATAAAGTAGTGGAGTTCACAGTGAAGGACGGTTAGTGCGAACAAATTTTATCATGGTTTCTGTCTCTCATTTTCAATTTTTCTGATATGTGATGTCTAATATAATGTTCACCATGAGACAGGTCATTTTTGTCCTGCATTGTCAATGGCTGTTAGAACTATGAAGAAGGGAGAGGAAGCGGCATTGACTGTGAAGCCTCAAT

Protein sequence

>MS.gene36987.t1

FILLERCSMVWSLNLAEQLLSRLDEGMLLKVWLMVUKQUKKVKRPFSPFHLSULTVDLVIFQNRFLLMQLCDMMLSYFLGLVWRIYVRMEVCSKGYLRRGRNGKIPRISTKFUUIMKRIFLMMENUULSLIKUWSSQURTVIFVLHCQWLLELURRERKRHULUSLN