AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene055254


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055254.t1 MTR_7g062470 91.603 131 6 1 1 126 1 131 1.20e-70 207
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055254.t1 AT5G02160 84.810 79 12 0 48 126 50 128 2.40e-46 146

Find 29 sgRNAs with CRISPR-Local

Find 113 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATCTTGTTGCTGGTGCTAT+TGG 0.295597 7.4:+41315662 MS.gene055254:CDS
GGCACTATTTATCTTGTTGC+TGG 0.299445 7.4:+41315653 MS.gene055254:CDS
GTGATGGAGCAGGGTTTGTT+AGG 0.314720 7.4:+41317113 MS.gene055254:CDS
AAATGAGAGTTTAGTGTTGT+TGG 0.340680 7.4:-41315540 None:intergenic
GCTATTGGAATTGCTCTTGT+TGG 0.368974 7.4:+41315677 MS.gene055254:CDS
AACAACACTAAACTCTCATT+TGG 0.372290 7.4:+41315542 MS.gene055254:CDS
TTGTGCTCGTTGTGATGGTT+TGG 0.405035 7.4:+41317192 MS.gene055254:CDS
AGCATTTCTATTTGTCAACT+TGG 0.409660 7.4:-41317225 None:intergenic
TCGGTTGTTGTTTCAGCAGT+TGG 0.417535 7.4:+41315614 MS.gene055254:CDS
AACCCTGCTCCATCACAATC+AGG 0.417979 7.4:-41317106 None:intergenic
ATTGGGAATGATTGTGTTCA+AGG 0.420585 7.4:-41315507 None:intergenic
TGTGCTCGTTGTGATGGTTT+GGG 0.434742 7.4:+41317193 MS.gene055254:CDS
TCTTTACGTGAGAAGATGAT+AGG 0.453999 7.4:-41315710 None:intergenic
CAGGGTTTGTTAGGAAAGGT+GGG 0.459410 7.4:+41317122 MS.gene055254:CDS
GCAGGGTTTGTTAGGAAAGG+TGG 0.460825 7.4:+41317121 MS.gene055254:CDS
GAGAGCAAATGCAGCAAGAA+AGG 0.478276 7.4:+41317153 MS.gene055254:CDS
GTTGTTGGAAATTGTAACAT+TGG 0.483393 7.4:-41315525 None:intergenic
AACACTAAACTCTCATTTGG+AGG 0.496202 7.4:+41315545 MS.gene055254:CDS
TGCCCTGATTGTGATGGAGC+AGG 0.517909 7.4:+41317103 MS.gene055254:CDS
TTGTTGGAAATTGTAACATT+GGG 0.522805 7.4:-41315524 None:intergenic
ATTGTTTGTGCTCGTTGTGA+TGG 0.530028 7.4:+41317187 MS.gene055254:CDS
GGAGCAGGGTTTGTTAGGAA+AGG 0.545979 7.4:+41317118 MS.gene055254:CDS
AATGATTGTGTTCAAGGTCA+TGG 0.560862 7.4:-41315501 None:intergenic
TCATCAGAAGAAATCTTCAT+CGG 0.584613 7.4:+41315595 MS.gene055254:CDS
GTTGGAGATGTATCTTCTGA+TGG 0.593310 7.4:+41315632 MS.gene055254:CDS
ACCCTGCTCCATCACAATCA+GGG 0.608104 7.4:-41317105 None:intergenic
GCCCTGATTGTGATGGAGCA+GGG 0.608764 7.4:+41317104 MS.gene055254:CDS
ATCAGATGCCCTGATTGTGA+TGG 0.647435 7.4:+41317097 MS.gene055254:intron
AGGGTTTGTTAGGAAAGGTG+GGG 0.670666 7.4:+41317123 MS.gene055254:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTAAATAAAAAATCTGATTT+CGG + chr7.4:41316270-41316289 MS.gene055254:intron 10.0%
!!! TTTTTACTTAATTTGAAAAT+AGG - chr7.4:41316803-41316822 None:intergenic 10.0%
!! AAAAATAGGTTTATAATTCT+TGG - chr7.4:41316757-41316776 None:intergenic 15.0%
!! GTACTTTATTGTAAAAATTT+AGG + chr7.4:41316210-41316229 MS.gene055254:intron 15.0%
!! TTATAAAAAGAAATTAGAGA+TGG + chr7.4:41315974-41315993 MS.gene055254:intron 15.0%
!!! AAATTTTTACAATAAAGTAC+TGG - chr7.4:41316210-41316229 None:intergenic 15.0%
!!! GTTTAAGTTTTTAATAATAG+TGG + chr7.4:41316325-41316344 MS.gene055254:intron 15.0%
!!! TTATTTTTGTGTATATAACT+AGG - chr7.4:41316106-41316125 None:intergenic 15.0%
!! AATCTTAAAACCACAAAAAT+AGG - chr7.4:41316771-41316790 None:intergenic 20.0%
!! ATTAAAACTATACTTACCTA+TGG - chr7.4:41316154-41316173 None:intergenic 20.0%
!! CCTAGAATAAAAAAAAGTTT+AGG - chr7.4:41315902-41315921 None:intergenic 20.0%
!! TATTGTAAAAATTTAGGCTT+GGG + chr7.4:41316216-41316235 MS.gene055254:intron 20.0%
!! TGGATAAAATGAATTTGAAT+TGG - chr7.4:41316827-41316846 None:intergenic 20.0%
!! TTATTGTAAAAATTTAGGCT+TGG + chr7.4:41316215-41316234 MS.gene055254:intron 20.0%
!!! AATTTTTGTATAGGCATTTT+TGG + chr7.4:41315925-41315944 MS.gene055254:intron 20.0%
!!! ATTTTTAAAGTCATTTCCAT+AGG + chr7.4:41316135-41316154 MS.gene055254:intron 20.0%
!!! CCTAAACTTTTTTTTATTCT+AGG + chr7.4:41315899-41315918 MS.gene055254:intron 20.0%
!!! GAATTATAAACCTATTTTTG+TGG + chr7.4:41316758-41316777 MS.gene055254:intron 20.0%
!!! TTATAAGTTATTGACTTTGA+AGG - chr7.4:41316864-41316883 None:intergenic 20.0%
! ACATCATTAACAAACAACAA+AGG - chr7.4:41317060-41317079 None:intergenic 25.0%
! CTCATCTTAGAATTGAAATT+TGG - chr7.4:41316306-41316325 None:intergenic 25.0%
! TAACTTATAACCAACATGAA+CGG + chr7.4:41316874-41316893 MS.gene055254:intron 25.0%
! TAATGTGAACAAATTACACT+TGG + chr7.4:41315852-41315871 MS.gene055254:intron 25.0%
! TGAAGGTTAAATTTGATGTT+TGG - chr7.4:41316847-41316866 None:intergenic 25.0%
! TTGTTGGAAATTGTAACATT+GGG - chr7.4:41315527-41315546 None:intergenic 25.0%
!! TAGTTTTCAATAGTCATCAA+TGG + chr7.4:41316541-41316560 MS.gene055254:intron 25.0%
!! TCTAGGAGAAATTTTTGTAT+AGG + chr7.4:41315916-41315935 MS.gene055254:intron 25.0%
!!! CATCGTTATTTTCATTTTCA+TGG + chr7.4:41315747-41315766 MS.gene055254:intron 25.0%
!!! TATTTTCGTTGATTCTTGTT+TGG + chr7.4:41316996-41317015 MS.gene055254:intron 25.0%
AAATGAGAGTTTAGTGTTGT+TGG - chr7.4:41315543-41315562 None:intergenic 30.0%
AACAACACTAAACTCTCATT+TGG + chr7.4:41315542-41315561 MS.gene055254:CDS 30.0%
ATAATAGTGGTTGAAAGTTG+TGG + chr7.4:41316338-41316357 MS.gene055254:intron 30.0%
GTTGTTGGAAATTGTAACAT+TGG - chr7.4:41315528-41315547 None:intergenic 30.0%
TCATCAGAAGAAATCTTCAT+CGG + chr7.4:41315595-41315614 MS.gene055254:CDS 30.0%
TGAACAAATTACACTTGGAA+TGG + chr7.4:41315857-41315876 MS.gene055254:intron 30.0%
! TTTTCAATAGTCATCAATGG+TGG + chr7.4:41316544-41316563 MS.gene055254:intron 30.0%
!! ACACACGTTCTTATTGATTT+AGG + chr7.4:41316177-41316196 MS.gene055254:intron 30.0%
!! TTGTATAGGCATTTTTGGAT+TGG + chr7.4:41315930-41315949 MS.gene055254:intron 30.0%
!!! AGTTAGTTTTCTAATCCACT+TGG + chr7.4:41316936-41316955 MS.gene055254:intron 30.0%
!!! GTTAGTTTTCTAATCCACTT+GGG + chr7.4:41316937-41316956 MS.gene055254:intron 30.0%
AACACTAAACTCTCATTTGG+AGG + chr7.4:41315545-41315564 MS.gene055254:CDS 35.0%
AATGATTGTGTTCAAGGTCA+TGG - chr7.4:41315504-41315523 None:intergenic 35.0%
ATTGGGAATGATTGTGTTCA+AGG - chr7.4:41315510-41315529 None:intergenic 35.0%
TCTTTACGTGAGAAGATGAT+AGG - chr7.4:41315713-41315732 None:intergenic 35.0%
TGTAAAAATTTAGGCTTGGG+TGG + chr7.4:41316219-41316238 MS.gene055254:intron 35.0%
!! TCGTTGATTCTTGTTTGGAA+TGG + chr7.4:41317001-41317020 MS.gene055254:intron 35.0%
ACTGTCAGAATGATGATTGG+TGG + chr7.4:41316475-41316494 MS.gene055254:intron 40.0%
ATAGTCATCAATGGTGGTAG+TGG + chr7.4:41316550-41316569 MS.gene055254:intron 40.0%
ATTGTTTGTGCTCGTTGTGA+TGG + chr7.4:41317187-41317206 MS.gene055254:CDS 40.0%
ATTTAAGCAGCCGTTCATGT+TGG - chr7.4:41316887-41316906 None:intergenic 40.0%
CAATCATCATTCTTAGGTGG+TGG + chr7.4:41316595-41316614 MS.gene055254:intron 40.0%
CACCACCTAAGAATGATGAT+TGG - chr7.4:41316597-41316616 None:intergenic 40.0%
CACCTAAGAATGATGATTGG+CGG - chr7.4:41316594-41316613 None:intergenic 40.0%
CTAGCACAAATATTCCCAAG+TGG - chr7.4:41316954-41316973 None:intergenic 40.0%
GCAACTGTCAGAATGATGAT+TGG + chr7.4:41316472-41316491 MS.gene055254:intron 40.0%
GCTATTGGAATTGCTCTTGT+TGG + chr7.4:41315677-41315696 MS.gene055254:CDS 40.0%
GGCACTATTTATCTTGTTGC+TGG + chr7.4:41315653-41315672 MS.gene055254:CDS 40.0%
GTTGGAGATGTATCTTCTGA+TGG + chr7.4:41315632-41315651 MS.gene055254:CDS 40.0%
! TAGTATGATGATTGGCGGAT+AGG + chr7.4:41316437-41316456 MS.gene055254:intron 40.0%
!! TATCTTGTTGCTGGTGCTAT+TGG + chr7.4:41315662-41315681 MS.gene055254:CDS 40.0%
AAACAAGTGGCTGCAATGGT+CGG + chr7.4:41316381-41316400 MS.gene055254:intron 45.0%
ATCAGATGCCCTGATTGTGA+TGG + chr7.4:41317097-41317116 MS.gene055254:intron 45.0%
CGCCAATCATCATTCTTAGG+TGG + chr7.4:41316592-41316611 MS.gene055254:intron 45.0%
GAGAGCAAATGCAGCAAGAA+AGG + chr7.4:41317153-41317172 MS.gene055254:CDS 45.0%
GCAGCTGCTAGTATGATGAT+TGG + chr7.4:41316429-41316448 MS.gene055254:intron 45.0%
GCTGCTAGTATGATGATTGG+CGG + chr7.4:41316432-41316451 MS.gene055254:intron 45.0%
TGGTTGAAAGTTGTGGCTGT+CGG + chr7.4:41316345-41316364 MS.gene055254:intron 45.0%
TGTGCTCGTTGTGATGGTTT+GGG + chr7.4:41317193-41317212 MS.gene055254:CDS 45.0%
TTGTGCTCGTTGTGATGGTT+TGG + chr7.4:41317192-41317211 MS.gene055254:CDS 45.0%
! CAGAATGATGATTGGTGGAC+AGG + chr7.4:41316480-41316499 MS.gene055254:intron 45.0%
! CATTCTTAGGTGGTGGTCTT+AGG + chr7.4:41316602-41316621 MS.gene055254:intron 45.0%
! CTTAGGTGATCTAAGGTGGT+TGG + chr7.4:41316619-41316638 MS.gene055254:intron 45.0%
! TATGATGATTGGCGGATAGG+TGG + chr7.4:41316440-41316459 MS.gene055254:intron 45.0%
! TGGTCTTAGGTGATCTAAGG+TGG + chr7.4:41316615-41316634 MS.gene055254:intron 45.0%
! TGGTGGTCTTAGGTGATCTA+AGG + chr7.4:41316612-41316631 MS.gene055254:intron 45.0%
!! AGGGTTTGTTAGGAAAGGTG+GGG + chr7.4:41317123-41317142 MS.gene055254:CDS 45.0%
!! CAGGGTTTGTTAGGAAAGGT+GGG + chr7.4:41317122-41317141 MS.gene055254:CDS 45.0%
!! TCGGTTGTTGTTTCAGCAGT+TGG + chr7.4:41315614-41315633 MS.gene055254:CDS 45.0%
AACCCTGCTCCATCACAATC+AGG - chr7.4:41317109-41317128 None:intergenic 50.0%
ACCCTGCTCCATCACAATCA+GGG - chr7.4:41317108-41317127 None:intergenic 50.0%
AGTGGTGATCGGCAAACAAG+TGG + chr7.4:41316368-41316387 MS.gene055254:intron 50.0%
AGTGGTGGTCAGAGTACATG+TGG + chr7.4:41316568-41316587 MS.gene055254:intron 50.0%
GGACAGGTGATCACAACTGT+CGG + chr7.4:41316496-41316515 MS.gene055254:intron 50.0%
GGCCGCCAATCATCATTCTT+AGG + chr7.4:41316589-41316608 MS.gene055254:intron 50.0%
! ATCTAAGGTGGTTGGAGCGA+TGG + chr7.4:41316627-41316646 MS.gene055254:intron 50.0%
! GTGATGGAGCAGGGTTTGTT+AGG + chr7.4:41317113-41317132 MS.gene055254:CDS 50.0%
!! GCAGGGTTTGTTAGGAAAGG+TGG + chr7.4:41317121-41317140 MS.gene055254:CDS 50.0%
!! GGAGCAGGGTTTGTTAGGAA+AGG + chr7.4:41317118-41317137 MS.gene055254:CDS 50.0%
!! GTCATCAATGGTGGTAGTGG+TGG + chr7.4:41316553-41316572 MS.gene055254:intron 50.0%
ATGGTCGGAGTGGTGATTGG+CGG + chr7.4:41316396-41316415 MS.gene055254:intron 55.0%
CAGGTGATCACAACTGTCGG+AGG + chr7.4:41316499-41316518 MS.gene055254:intron 55.0%
CGGCAAACAAGTGGCTGCAA+TGG + chr7.4:41316377-41316396 MS.gene055254:intron 55.0%
CTGTCGGAGGTGATCAACAG+TGG + chr7.4:41316512-41316531 MS.gene055254:intron 55.0%
GAAAGTTGTGGCTGTCGGAG+TGG + chr7.4:41316350-41316369 MS.gene055254:intron 55.0%
GCAATGGTCGGAGTGGTGAT+TGG + chr7.4:41316393-41316412 MS.gene055254:intron 55.0%
GTCGTAGTGTAGGTCGTTGG+CGG + chr7.4:41316690-41316709 MS.gene055254:intron 55.0%
GTGATCGGAGAAGTGGTTGG+TGG + chr7.4:41316665-41316684 MS.gene055254:intron 55.0%
GTGGTCGTAGTGTAGGTCGT+TGG + chr7.4:41316687-41316706 MS.gene055254:intron 55.0%
GTGGTGATCGGAGAAGTGGT+TGG + chr7.4:41316662-41316681 MS.gene055254:intron 55.0%
TGGCGGTCAACGATCACTAG+TGG + chr7.4:41316707-41316726 MS.gene055254:intron 55.0%
! GCCCTGATTGTGATGGAGCA+GGG + chr7.4:41317104-41317123 MS.gene055254:CDS 55.0%
! TGCCCTGATTGTGATGGAGC+AGG + chr7.4:41317103-41317122 MS.gene055254:CDS 55.0%
!! ATCGGAGAAGTGGTTGGTGG+TGG + chr7.4:41316668-41316687 MS.gene055254:intron 55.0%
!! GTTGGTGGTGGTCGTAGTGT+AGG + chr7.4:41316680-41316699 MS.gene055254:intron 55.0%
!! TCGACTTGGTCGGTGGTGAT+CGG + chr7.4:41316650-41316669 MS.gene055254:intron 55.0%
AGTGGCTGCAATGGTCGGAG+TGG + chr7.4:41316386-41316405 MS.gene055254:intron 60.0%
GGTTGGAGCGATGGTCGACT+TGG + chr7.4:41316636-41316655 MS.gene055254:intron 60.0%
GTCGGTGGTGATCGGAGAAG+TGG + chr7.4:41316658-41316677 MS.gene055254:intron 60.0%
GTGGCTGTCGGAGTGGTGAT+CGG + chr7.4:41316357-41316376 MS.gene055254:intron 60.0%
!! AGTGGTGATTGGCGGACTGG+TGG + chr7.4:41316404-41316423 MS.gene055254:intron 60.0%
!! GGAGCGATGGTCGACTTGGT+CGG + chr7.4:41316640-41316659 MS.gene055254:intron 60.0%
! CGGAGTGGTGATTGGCGGAC+TGG + chr7.4:41316401-41316420 MS.gene055254:intron 65.0%
!! GCGATGGTCGACTTGGTCGG+TGG + chr7.4:41316643-41316662 MS.gene055254:intron 65.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 41315494 41317240 41315494 ID=MS.gene055254
chr7.4 mRNA 41315494 41317240 41315494 ID=MS.gene055254.t1;Parent=MS.gene055254
chr7.4 exon 41315494 41315735 41315494 ID=MS.gene055254.t1.exon1;Parent=MS.gene055254.t1
chr7.4 CDS 41315494 41315735 41315494 ID=cds.MS.gene055254.t1;Parent=MS.gene055254.t1
chr7.4 exon 41317102 41317240 41317102 ID=MS.gene055254.t1.exon2;Parent=MS.gene055254.t1
chr7.4 CDS 41317102 41317240 41317102 ID=cds.MS.gene055254.t1;Parent=MS.gene055254.t1
Gene Sequence

>MS.gene055254

ATGGCATCCATGACCTTGAACACAATCATTCCCAATGTTACAATTTCCAACAACACTAAACTCTCATTTGGAGGCTCAACAAATGTGTCATGTAACAAGATTCATCAGAAGAAATCTTCATCGGTTGTTGTTTCAGCAGTTGGAGATGTATCTTCTGATGGCACTATTTATCTTGTTGCTGGTGCTATTGGAATTGCTCTTGTTGGAACTGCATTTCCTATCATCTTCTCACGTAAAGACACGTAAGTAACATCATCGTTATTTTCATTTTCATGGTTTTATATTTTCATTTCAATTATAGTTTTACATGTTTCATGATCTTTATTTTGTTAATCTTTTGTTATACTATGTGTTTTGATAATGTGAACAAATTACACTTGGAATGGAAACGATCATAATTTGAAGCCTAAACTTTTTTTTATTCTAGGAGAAATTTTTGTATAGGCATTTTTGGATTGGTATTTTAATATAAAAAATGAATTATAAAAAGAAATTAGAGATGGAAAAAATGAAAGTTATCGTTAATTTACTCAGAAGTGTTAGAGATGTTAAAATGAGAAATTAATTTCTTATATTTTGTCTCTGATCTTTGTCAATAATTCAATTTGTCCTAGTTATATACACAAAAATAATTGATTAACATTTTTAAAGTCATTTCCATAGGTAAGTATAGTTTTAATTTGACACACGTTCTTATTGATTTAGGTCTCAATCCAGTACTTTATTGTAAAAATTTAGGCTTGGGTGGTTTTAAGTTTTTATTTTGATTTTTTTTTTTAAATAAAAAATCTGATTTCGGTTTTTAGTTTCCAAATTTCAATTCTAAGATGAGTTTAAGTTTTTAATAATAGTGGTTGAAAGTTGTGGCTGTCGGAGTGGTGATCGGCAAACAAGTGGCTGCAATGGTCGGAGTGGTGATTGGCGGACTGGTGGCTGCAGCTGCTAGTATGATGATTGGCGGATAGGTGGTTGCGACTTGCAACTGTCAGAATGATGATTGGTGGACAGGTGATCACAACTGTCGGAGGTGATCAACAGTGGTTAGAGTAGTTTTCAATAGTCATCAATGGTGGTAGTGGTGGTCAGAGTACATGTGGCCGCCAATCATCATTCTTAGGTGGTGGTCTTAGGTGATCTAAGGTGGTTGGAGCGATGGTCGACTTGGTCGGTGGTGATCGGAGAAGTGGTTGGTGGTGGTCGTAGTGTAGGTCGTTGGCGGTCAACGATCACTAGTGGTAACATGTTAACGTTAAAATAAATCCAAGAATTATAAACCTATTTTTGTGGTTTTAAGATTTAAGTGAAACCTATTTTCAAATTAAGTAAAAAACCAATTCAAATTCATTTTATCCAAACATCAAATTTAACCTTCAAAGTCAATAACTTATAACCAACATGAACGGCTGCTTAAATTCTTAATCTTATGTAACTATATATCTTGAAGTTAGTTTTCTAATCCACTTGGGAATATTTGTGCTAGATTTTTATTTCAAGTGCATGTTTATTTTCGTTGATTCTTGTTTGGAATGGTTTAAACATGTAAAAAAAAGAATGTAACTATGTCCTTTGTTGTTTGTTAATGATGTTATTGTTGAAACATTGTATCAGATGCCCTGATTGTGATGGAGCAGGGTTTGTTAGGAAAGGTGGGGTGACATTGAGAGCAAATGCAGCAAGAAAGGATCAAACTCAAATTGTTTGTGCTCGTTGTGATGGTTTGGGAAAACTTAACCAAGTTGACAAATAG

Protein sequence

>MS.gene055254.t1

MASMTLNTIIPNVTISNNTKLSFGGSTNVSCNKIHQKKSSSVVVSAVGDVSSDGTIYLVAGAIGIALVGTAFPIIFSRKDTCPDCDGAGFVRKGGVTLRANAARKDQTQIVCARCDGLGKLNQVDK