AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene059455


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene059455.t1 MTR_0180s0050 97.407 270 5 1 1 268 1 270 0.0 551
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene059455.t1 AT4G29070 54.478 268 111 6 1 267 1 258 1.22e-97 287
MS.gene059455.t1 AT4G29070 54.478 268 111 6 1 267 1 258 1.22e-97 287

Find 74 sgRNAs with CRISPR-Local

Find 77 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGCTGAATCTGGAGTAAATT+TGG 0.151133 3.2:-35454360 None:intergenic
TACAAGACAATGTGCATTAA+TGG 0.165763 3.2:+35454890 MS.gene059455:CDS
CGTTGTTGGAAAAGATAATA+TGG 0.290049 3.2:+35454556 MS.gene059455:CDS
TCACAGTTGTTTCCTAGATA+TGG 0.298208 3.2:+35454647 MS.gene059455:CDS
CTCCTTTAGTACGCAAAATA+TGG 0.299910 3.2:-35454847 None:intergenic
TCTTTCCCACTTGACCAATT+AGG 0.322806 3.2:-35454683 None:intergenic
GACATTACTGTGGACCTAAT+TGG 0.334471 3.2:+35454669 MS.gene059455:CDS
ACTAAATGAGTCGCTGAATC+TGG 0.356726 3.2:-35454371 None:intergenic
ACAATGAACTTGGGGTTTCT+TGG 0.368292 3.2:+35454230 None:intergenic
GGACGATCATTGATCCAGTT+TGG 0.376412 3.2:+35455083 MS.gene059455:CDS
TGGCTACCCCTTTGCGCTTT+AGG 0.380144 3.2:+35454576 MS.gene059455:CDS
GATGGCTAAGCAATTTGAAA+TGG 0.388789 3.2:+35455105 MS.gene059455:CDS
CCTTCCTTTCATTATTTCCA+TGG 0.391268 3.2:+35454453 MS.gene059455:CDS
GGTTTCTTGGTGACATACCT+TGG 0.392393 3.2:+35454243 MS.gene059455:CDS
CTTTAGGCCTTATGTTTGTA+AGG 0.395654 3.2:+35454592 MS.gene059455:CDS
AATTGCTTAGCCATCCAAAC+TGG 0.398532 3.2:-35455097 None:intergenic
GTTAATGATCCCAAGTTGTC+AGG 0.399483 3.2:+35454419 MS.gene059455:CDS
TGTAAGGTTCCATGGCATAC+AGG 0.400157 3.2:+35454608 MS.gene059455:CDS
CAAAATCGCGAAAACGTTGT+TGG 0.403825 3.2:+35454542 MS.gene059455:CDS
AACTCTTTATTGATCGTAGT+TGG 0.408341 3.2:-35454506 None:intergenic
GTTTCTTGGTGACATACCTT+GGG 0.412643 3.2:+35454244 MS.gene059455:CDS
CCACAGTAATGTCCATATCT+AGG 0.418492 3.2:-35454659 None:intergenic
CTATATGTATTGCTGAATCT+TGG 0.422378 3.2:-35454283 None:intergenic
GGGACAAGCGTCCAATTGAT+TGG 0.422404 3.2:+35454723 MS.gene059455:CDS
TGCTGCTATTGCCATGATAT+AGG 0.424949 3.2:+35454755 MS.gene059455:CDS
GCTGAATCTGGAGTAAATTT+GGG 0.427880 3.2:-35454359 None:intergenic
GCAATTTGAAATGGAGGAGT+TGG 0.430368 3.2:+35455114 MS.gene059455:CDS
CAAGCGTCCAATTGATTGGT+TGG 0.431275 3.2:+35454727 MS.gene059455:CDS
CATAAGGCCTAAAGCGCAAA+GGG 0.438079 3.2:-35454583 None:intergenic
CAAGTCAAACATGAATCATC+TGG 0.443608 3.2:+35454329 MS.gene059455:CDS
CTTACGAGATTCGTTCTGTA+AGG 0.444009 3.2:-35455047 None:intergenic
CAAGGGCCACCCTGACAACT+TGG 0.449292 3.2:-35454429 None:intergenic
CATACCTTGGGTTAAACCTC+GGG 0.451469 3.2:+35454256 MS.gene059455:CDS
AATTGGTCAAGTGGGAAAGA+TGG 0.457230 3.2:+35454686 MS.gene059455:CDS
ATTGGTCAAGTGGGAAAGAT+GGG 0.460984 3.2:+35454687 MS.gene059455:CDS
CTTATGTTTGTAAGGTTCCA+TGG 0.465114 3.2:+35454600 MS.gene059455:CDS
TTTCCATGGACAAATAAAGA+TGG 0.484730 3.2:+35454467 MS.gene059455:CDS
CAGTAATCCAACCAATCAAT+TGG 0.489028 3.2:-35454734 None:intergenic
TCTCCATCTTTATTTGTCCA+TGG 0.491763 3.2:-35454470 None:intergenic
TTGTGGTGGCACAATGAACT+TGG 0.497520 3.2:+35454220 None:intergenic
GCAAAATATGGCGATTCTCT+AGG 0.500333 3.2:-35454835 None:intergenic
CATGGAACCTTACAAACATA+AGG 0.504158 3.2:-35454599 None:intergenic
GAGTATCGTATCCTATATCA+TGG 0.517155 3.2:-35454766 None:intergenic
GTAAGGTTCCATGGCATACA+GGG 0.522334 3.2:+35454609 MS.gene059455:CDS
ATTCTCTAGGCACTCAAGAA+AGG 0.522803 3.2:-35454822 None:intergenic
TGTGGTGGCACAATGAACTT+GGG 0.524930 3.2:+35454221 None:intergenic
GATCATTGATCCAGTTTGGA+TGG 0.540863 3.2:+35455087 MS.gene059455:CDS
CTCGTAAGTCTACAACAGTC+AGG 0.550370 3.2:+35455062 MS.gene059455:CDS
TTGGTCAAGTGGGAAAGATG+GGG 0.571014 3.2:+35454688 MS.gene059455:CDS
ACATACCTTGGGTTAAACCT+CGG 0.574287 3.2:+35454255 MS.gene059455:CDS
TTGTCCATGGAAATAATGAA+AGG 0.574330 3.2:-35454457 None:intergenic
GGCTAAGCAATTTGAAATGG+AGG 0.576092 3.2:+35455108 MS.gene059455:CDS
TGTAAAGATGAGCAACGTGC+GGG 0.578466 3.2:-35454871 None:intergenic
CCATGGAAATAATGAAAGGA+AGG 0.579238 3.2:-35454453 None:intergenic
CGATCAATAAAGAGTTGAAG+AGG 0.584391 3.2:+35454513 MS.gene059455:CDS
TGTGGACCTAATTGGTCAAG+TGG 0.591356 3.2:+35454677 MS.gene059455:CDS
AAGGGCCACCCTGACAACTT+GGG 0.599062 3.2:-35454428 None:intergenic
GCTCTAACCCCTGTATGCCA+TGG 0.599360 3.2:-35454617 None:intergenic
TTACCCCGAGGTTTAACCCA+AGG 0.601608 3.2:-35454260 None:intergenic
ACATAAGGCCTAAAGCGCAA+AGG 0.604279 3.2:-35454584 None:intergenic
TTAATGATCCCAAGTTGTCA+GGG 0.607070 3.2:+35454420 MS.gene059455:CDS
CCTAGATATGGACATTACTG+TGG 0.633496 3.2:+35454659 MS.gene059455:CDS
TGGTCAAGTGGGAAAGATGG+GGG 0.645782 3.2:+35454689 MS.gene059455:CDS
AAATAATGAAAGGAAGGACA+AGG 0.651374 3.2:-35454447 None:intergenic
GTGGACCTAATTGGTCAAGT+GGG 0.651606 3.2:+35454678 MS.gene059455:CDS
GTGGTGGCACAATGAACTTG+GGG 0.655593 3.2:+35454222 None:intergenic
TTGTAAAGATGAGCAACGTG+CGG 0.657865 3.2:-35454872 None:intergenic
TAAGGTTCCATGGCATACAG+GGG 0.665512 3.2:+35454610 MS.gene059455:CDS
GACTTGCGAAGTAAACGCAG+TGG 0.668908 3.2:-35454312 None:intergenic
AATAATGAAAGGAAGGACAA+GGG 0.697312 3.2:-35454446 None:intergenic
ATGATCCCAAGTTGTCAGGG+TGG 0.699677 3.2:+35454423 MS.gene059455:CDS
GCTGAATCTTGGTTACCCCG+AGG 0.700732 3.2:-35454272 None:intergenic
ATACCTTGGGTTAAACCTCG+GGG 0.701879 3.2:+35454257 MS.gene059455:CDS
ATAAGGCCTAAAGCGCAAAG+GGG 0.758660 3.2:-35454582 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TGTTTTTTTTCTCTATGAAA+TGG + chr3.2:35455001-35455020 MS.gene059455:intron 20.0%
!! ATTTGTGCTTTTCTGTTATT+CGG + chr3.2:35454942-35454961 MS.gene059455:intron 25.0%
AAATAATGAAAGGAAGGACA+AGG - chr3.2:35454450-35454469 None:intergenic 30.0%
AACTCTTTATTGATCGTAGT+TGG - chr3.2:35454509-35454528 None:intergenic 30.0%
AATAATGAAAGGAAGGACAA+GGG - chr3.2:35454449-35454468 None:intergenic 30.0%
CGTTGTTGGAAAAGATAATA+TGG + chr3.2:35454556-35454575 MS.gene059455:CDS 30.0%
CTATATGTATTGCTGAATCT+TGG - chr3.2:35454286-35454305 None:intergenic 30.0%
TACAAGACAATGTGCATTAA+TGG + chr3.2:35454890-35454909 MS.gene059455:CDS 30.0%
TTGTCCATGGAAATAATGAA+AGG - chr3.2:35454460-35454479 None:intergenic 30.0%
TTTCCATGGACAAATAAAGA+TGG + chr3.2:35454467-35454486 MS.gene059455:CDS 30.0%
!!! TTTTTTCTCTATGAAATGGC+AGG + chr3.2:35455005-35455024 MS.gene059455:intron 30.0%
CAAGTCAAACATGAATCATC+TGG + chr3.2:35454329-35454348 MS.gene059455:CDS 35.0%
CAGTAATCCAACCAATCAAT+TGG - chr3.2:35454737-35454756 None:intergenic 35.0%
CATGGAACCTTACAAACATA+AGG - chr3.2:35454602-35454621 None:intergenic 35.0%
CCATGGAAATAATGAAAGGA+AGG - chr3.2:35454456-35454475 None:intergenic 35.0%
CCTTCCTTTCATTATTTCCA+TGG + chr3.2:35454453-35454472 MS.gene059455:CDS 35.0%
CGATCAATAAAGAGTTGAAG+AGG + chr3.2:35454513-35454532 MS.gene059455:CDS 35.0%
CTCCTTTAGTACGCAAAATA+TGG - chr3.2:35454850-35454869 None:intergenic 35.0%
CTTATGTTTGTAAGGTTCCA+TGG + chr3.2:35454600-35454619 MS.gene059455:CDS 35.0%
GAGAAAAAAAACAACGTCAG+CGG - chr3.2:35454994-35455013 None:intergenic 35.0%
GATGGCTAAGCAATTTGAAA+TGG + chr3.2:35455105-35455124 MS.gene059455:CDS 35.0%
TTAATGATCCCAAGTTGTCA+GGG + chr3.2:35454420-35454439 MS.gene059455:CDS 35.0%
! CTTTAGGCCTTATGTTTGTA+AGG + chr3.2:35454592-35454611 MS.gene059455:CDS 35.0%
! GAGTATCGTATCCTATATCA+TGG - chr3.2:35454769-35454788 None:intergenic 35.0%
! GCTGAATCTGGAGTAAATTT+GGG - chr3.2:35454362-35454381 None:intergenic 35.0%
! TCACAGTTGTTTCCTAGATA+TGG + chr3.2:35454647-35454666 MS.gene059455:CDS 35.0%
! TCTCCATCTTTATTTGTCCA+TGG - chr3.2:35454473-35454492 None:intergenic 35.0%
AATTGCTTAGCCATCCAAAC+TGG - chr3.2:35455100-35455119 None:intergenic 40.0%
AATTGGTCAAGTGGGAAAGA+TGG + chr3.2:35454686-35454705 MS.gene059455:CDS 40.0%
ACATACCTTGGGTTAAACCT+CGG + chr3.2:35454255-35454274 MS.gene059455:CDS 40.0%
ACTAAATGAGTCGCTGAATC+TGG - chr3.2:35454374-35454393 None:intergenic 40.0%
ATTCTCTAGGCACTCAAGAA+AGG - chr3.2:35454825-35454844 None:intergenic 40.0%
ATTGGTCAAGTGGGAAAGAT+GGG + chr3.2:35454687-35454706 MS.gene059455:CDS 40.0%
CAAAATCGCGAAAACGTTGT+TGG + chr3.2:35454542-35454561 MS.gene059455:CDS 40.0%
CCACAGTAATGTCCATATCT+AGG - chr3.2:35454662-35454681 None:intergenic 40.0%
CCTAGATATGGACATTACTG+TGG + chr3.2:35454659-35454678 MS.gene059455:CDS 40.0%
CTTACGAGATTCGTTCTGTA+AGG - chr3.2:35455050-35455069 None:intergenic 40.0%
GACATTACTGTGGACCTAAT+TGG + chr3.2:35454669-35454688 MS.gene059455:CDS 40.0%
GATCATTGATCCAGTTTGGA+TGG + chr3.2:35455087-35455106 MS.gene059455:CDS 40.0%
GCAAAATATGGCGATTCTCT+AGG - chr3.2:35454838-35454857 None:intergenic 40.0%
GTTAATGATCCCAAGTTGTC+AGG + chr3.2:35454419-35454438 MS.gene059455:CDS 40.0%
TCTTTCCCACTTGACCAATT+AGG - chr3.2:35454686-35454705 None:intergenic 40.0%
TGCTGCTATTGCCATGATAT+AGG + chr3.2:35454755-35454774 MS.gene059455:CDS 40.0%
TTGTAAAGATGAGCAACGTG+CGG - chr3.2:35454875-35454894 None:intergenic 40.0%
! CGCCATATTTTGCGTACTAA+AGG + chr3.2:35454845-35454864 MS.gene059455:CDS 40.0%
! CGCTGAATCTGGAGTAAATT+TGG - chr3.2:35454363-35454382 None:intergenic 40.0%
! GCAATTTGAAATGGAGGAGT+TGG + chr3.2:35455114-35455133 MS.gene059455:CDS 40.0%
! GGCTAAGCAATTTGAAATGG+AGG + chr3.2:35455108-35455127 MS.gene059455:CDS 40.0%
! GTTTCTTGGTGACATACCTT+GGG + chr3.2:35454244-35454263 MS.gene059455:CDS 40.0%
AAGATGGGGGATCTCTTGTT+TGG + chr3.2:35454702-35454721 MS.gene059455:CDS 45.0%
ACATAAGGCCTAAAGCGCAA+AGG - chr3.2:35454587-35454606 None:intergenic 45.0%
ATAAGGCCTAAAGCGCAAAG+GGG - chr3.2:35454585-35454604 None:intergenic 45.0%
ATACCTTGGGTTAAACCTCG+GGG + chr3.2:35454257-35454276 MS.gene059455:CDS 45.0%
CAAGCGTCCAATTGATTGGT+TGG + chr3.2:35454727-35454746 MS.gene059455:CDS 45.0%
CATAAGGCCTAAAGCGCAAA+GGG - chr3.2:35454586-35454605 None:intergenic 45.0%
CATACCTTGGGTTAAACCTC+GGG + chr3.2:35454256-35454275 MS.gene059455:CDS 45.0%
CTCGTAAGTCTACAACAGTC+AGG + chr3.2:35455062-35455081 MS.gene059455:CDS 45.0%
GGACGATCATTGATCCAGTT+TGG + chr3.2:35455083-35455102 MS.gene059455:CDS 45.0%
GTAAGGTTCCATGGCATACA+GGG + chr3.2:35454609-35454628 MS.gene059455:CDS 45.0%
GTGGACCTAATTGGTCAAGT+GGG + chr3.2:35454678-35454697 MS.gene059455:CDS 45.0%
TAAGGTTCCATGGCATACAG+GGG + chr3.2:35454610-35454629 MS.gene059455:CDS 45.0%
TGTAAAGATGAGCAACGTGC+GGG - chr3.2:35454874-35454893 None:intergenic 45.0%
TGTAAGGTTCCATGGCATAC+AGG + chr3.2:35454608-35454627 MS.gene059455:CDS 45.0%
TGTGGACCTAATTGGTCAAG+TGG + chr3.2:35454677-35454696 MS.gene059455:CDS 45.0%
TTGGTCAAGTGGGAAAGATG+GGG + chr3.2:35454688-35454707 MS.gene059455:CDS 45.0%
! AGATGGGGGATCTCTTGTTT+GGG + chr3.2:35454703-35454722 MS.gene059455:CDS 45.0%
! GGTTTCTTGGTGACATACCT+TGG + chr3.2:35454243-35454262 MS.gene059455:CDS 45.0%
ATGATCCCAAGTTGTCAGGG+TGG + chr3.2:35454423-35454442 MS.gene059455:CDS 50.0%
GACTTGCGAAGTAAACGCAG+TGG - chr3.2:35454315-35454334 None:intergenic 50.0%
GGGACAAGCGTCCAATTGAT+TGG + chr3.2:35454723-35454742 MS.gene059455:CDS 50.0%
TGGTCAAGTGGGAAAGATGG+GGG + chr3.2:35454689-35454708 MS.gene059455:CDS 50.0%
TTACCCCGAGGTTTAACCCA+AGG - chr3.2:35454263-35454282 None:intergenic 50.0%
AAGGGCCACCCTGACAACTT+GGG - chr3.2:35454431-35454450 None:intergenic 55.0%
GCTCTAACCCCTGTATGCCA+TGG - chr3.2:35454620-35454639 None:intergenic 55.0%
GCTGAATCTTGGTTACCCCG+AGG - chr3.2:35454275-35454294 None:intergenic 55.0%
TGGCTACCCCTTTGCGCTTT+AGG + chr3.2:35454576-35454595 MS.gene059455:CDS 55.0%
CAAGGGCCACCCTGACAACT+TGG - chr3.2:35454432-35454451 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 35454233 35455154 35454233 ID=MS.gene059455
chr3.2 mRNA 35454233 35455154 35454233 ID=MS.gene059455.t1;Parent=MS.gene059455
chr3.2 exon 35454233 35454911 35454233 ID=MS.gene059455.t1.exon1;Parent=MS.gene059455.t1
chr3.2 CDS 35454233 35454911 35454233 ID=cds.MS.gene059455.t1;Parent=MS.gene059455.t1
chr3.2 exon 35455027 35455154 35455027 ID=MS.gene059455.t1.exon2;Parent=MS.gene059455.t1
chr3.2 CDS 35455027 35455154 35455027 ID=cds.MS.gene059455.t1;Parent=MS.gene059455.t1
Gene Sequence

>MS.gene059455

ATGAACTTGGGGTTTCTTGGTGACATACCTTGGGTTAAACCTCGGGGTAACCAAGATTCAGCAATACATATAGTTCAAACCACTGCGTTTACTTCGCAAGTCAAACATGAATCATCTGGTATTGATCCCAAATTTACTCCAGATTCAGCGACTCATTTAGTTCAAAAAGCACAACAAGAGTCATCTGTTAATGATCCCAAGTTGTCAGGGTGGCCCTTGTCCTTCCTTTCATTATTTCCATGGACAAATAAAGATGGAGAAAAGTTTCAAAGACCAACTACGATCAATAAAGAGTTGAAGAGGCATGCACAAAATCGCGAAAACGTTGTTGGAAAAGATAATATGGCTACCCCTTTGCGCTTTAGGCCTTATGTTTGTAAGGTTCCATGGCATACAGGGGTTAGAGCATTTCTTTCACAGTTGTTTCCTAGATATGGACATTACTGTGGACCTAATTGGTCAAGTGGGAAAGATGGGGGATCTCTTGTTTGGGACAAGCGTCCAATTGATTGGTTGGATTACTGCTGCTATTGCCATGATATAGGATACGATACTCATGATCAAGCTAAACTGCTGAAAGCTGATTTAGCCTTTCTTGAGTGCCTAGAGAATCGCCATATTTTGCGTACTAAAGGAGACCCGCACGTTGCTCATCTTTACAAGACAATGTGCATTAATGGTTCGCATTGCAACTCATTAATTATAATAGATTTGTGCTTTTCTGTTATTCGGAAACGAGTTTAATTTGAGCTTATTTACCGCTGACGTTGTTTTTTTTCTCTATGAAATGGCAGGTCTTAAGAATTTTCTAATACCTTACAGAACGAATCTCGTAAGTCTACAACAGTCAGGACGATCATTGATCCAGTTTGGATGGCTAAGCAATTTGAAATGGAGGAGTTGGAATTACCAAAAAGAATGA

Protein sequence

>MS.gene059455.t1

MNLGFLGDIPWVKPRGNQDSAIHIVQTTAFTSQVKHESSGIDPKFTPDSATHLVQKAQQESSVNDPKLSGWPLSFLSLFPWTNKDGEKFQRPTTINKELKRHAQNRENVVGKDNMATPLRFRPYVCKVPWHTGVRAFLSQLFPRYGHYCGPNWSSGKDGGSLVWDKRPIDWLDYCCYCHDIGYDTHDQAKLLKADLAFLECLENRHILRTKGDPHVAHLYKTMCINGLKNFLIPYRTNLVSLQQSGRSLIQFGWLSNLKWRSWNYQKE