AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG025408

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025408 MtrunA17_Chr5g0401351 96.030 403 16 0 1 403 1 403 0.0 804
MsaG025408 MtrunA17_Chr4g0053961 70.905 409 109 4 5 403 3 411 0.0 605
MsaG025408 MtrunA17_Chr4g0001411 47.816 412 186 8 2 403 17 409 6.86e-126 369
MsaG025408 MtrunA17_Chr3g0105631 47.870 399 184 7 11 403 8 388 2.53e-120 354
MsaG025408 MtrunA17_Chr4g0068331 34.550 411 237 12 9 402 11 406 9.58e-61 202
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025408 AT2G23060.1 68.116 414 114 4 6 403 2 413 0.0 567
MsaG025408 AT4G37580.1 67.082 401 125 3 10 403 3 403 0.0 543
MsaG025408 AT5G67430.1 60.000 395 142 6 9 403 8 386 5.17e-167 473
MsaG025408 AT4G37580.2 67.742 341 106 2 67 403 6 346 1.42e-165 468
MsaG025408 AT2G23060.2 69.892 279 81 1 128 403 1 279 1.22e-143 410
MsaG025408 AT5G67430.2 61.145 332 118 5 72 403 1 321 9.62e-142 407
MsaG025408 AT2G30090.1 42.040 402 194 7 11 403 15 386 9.27e-96 292

Find 97 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCTAAAACGACACGTATTT+TGG 0.139903 5:-7980781 MsaT025408.1:CDS
TTAACCATCTTCACCTTCTT+TGG 0.150962 5:+7980666 None:intergenic
TATCTTGTGCTAATGATTTA+TGG 0.162688 5:-7980530 MsaT025408.1:CDS
CCGGATTTGTTTAGGCCTTT+TGG 0.177590 5:-7980723 MsaT025408.1:CDS
TGGCCCAGATAGGTTTCTTT+TGG 0.229875 5:-7980898 MsaT025408.1:CDS
TGCTTGGTGACCCCATTTGC+AGG 0.320702 5:-7981784 MsaT025408.1:CDS
TAACCATCTTCACCTTCTTT+GGG 0.322009 5:+7980667 None:intergenic
GCCTAAAATGTAAGCGAGTT+TGG 0.325207 5:+7981452 None:intergenic
AGAACAGCGTCAATGTCATT+AGG 0.331188 5:+7980990 None:intergenic
CTTAATAACAAACTTAATCT+AGG 0.336122 5:-7980969 MsaT025408.1:CDS
TAAGCGAGTTTGGTGTAAAC+TGG 0.336993 5:+7981462 None:intergenic
TTGTGGGTTTGCGCATAATA+TGG 0.337467 5:-7980637 MsaT025408.1:CDS
TTTGGACCCACCTTGTTCTT+GGG 0.345593 5:-7980880 MsaT025408.1:CDS
CGTCGGTTCCGGATTTGTTT+AGG 0.361537 5:-7980731 MsaT025408.1:CDS
CGGCGCTGAATATTCATATA+TGG 0.362736 5:-7981213 MsaT025408.1:CDS
TTGGTAGCGTACCGTTGATT+AGG 0.367983 5:+7981417 None:intergenic
GGGTCCAAAAGAAACCTATC+TGG 0.369698 5:+7980894 None:intergenic
GTTGAAGGTACCGTCGGTTC+CGG 0.377354 5:-7980742 MsaT025408.1:CDS
ATGATTTATGGTGTATTAAG+AGG 0.386924 5:-7980518 MsaT025408.1:CDS
TTTGTTCTGTGAGCATAAAC+GGG 0.400112 5:+7981101 None:intergenic
CCGGGCTTTGCCGTGGTTGA+AGG 0.401375 5:-7980757 MsaT025408.1:CDS
TGAGGTTTGGTATACCTCAT+TGG 0.402328 5:-7980560 MsaT025408.1:CDS
TGGTGCAGGAGAATGGGAAT+AGG 0.414994 5:-7981278 MsaT025408.1:intron
GAACAGCGTCAATGTCATTA+GGG 0.415763 5:+7980991 None:intergenic
TGAGTGGCGGACCCTGCAAA+TGG 0.420570 5:+7981772 None:intergenic
GGCGCGTCGCGTGTCAAGCG+CGG 0.428563 5:-7980807 MsaT025408.1:CDS
AAGATGGTTAAGGCCCTTTG+TGG 0.430907 5:-7980654 MsaT025408.1:CDS
GCGCGTCGCGTGTCAAGCGC+GGG 0.431919 5:-7980806 MsaT025408.1:CDS
GAGTGGCGGACCCTGCAAAT+GGG 0.439578 5:+7981773 None:intergenic
CTCACCTTCTTTCCTCATGC+TGG 0.441437 5:-7981753 MsaT025408.1:intron
GTGATGGTTCTGTTGGTGAT+TGG 0.447246 5:-7980479 MsaT025408.1:CDS
GAAATAGTTGGAATGATAAG+AGG 0.455218 5:-7981552 MsaT025408.1:CDS
GGTGCAGGAGAATGGGAATA+GGG 0.455976 5:-7981277 MsaT025408.1:intron
GGAATGTGAGTGTGGGGTTG+TGG 0.464310 5:-7980610 MsaT025408.1:CDS
GAAATTGATAAAGAAATAGT+TGG 0.468243 5:-7981564 MsaT025408.1:CDS
TGACGAGAATTGACGGTGTA+CGG 0.468550 5:+7981126 None:intergenic
TCATGTGAACCATTGAGGTT+TGG 0.476876 5:-7980573 MsaT025408.1:CDS
TCTCTCTTCACCGACATGCT+TGG 0.485318 5:-7981800 MsaT025408.1:CDS
TACAGTGTCAAAACATGGCC+TGG 0.491753 5:-7980918 MsaT025408.1:CDS
AGATGGTTAAGGCCCTTTGT+GGG 0.493646 5:-7980653 MsaT025408.1:CDS
AAGTGTTTGGAATTCTAAAG+AGG 0.505817 5:-7980850 MsaT025408.1:CDS
CTTGTTGATGATTATAGTGA+TGG 0.506465 5:-7980495 MsaT025408.1:CDS
GATTGGACCAAGTCTATGCC+AGG 0.509333 5:-7980462 MsaT025408.1:CDS
CCAAAAGGCCTAAACAAATC+CGG 0.512387 5:+7980723 None:intergenic
AAAGAAGGTGAAGATGGTTA+AGG 0.518056 5:-7980664 MsaT025408.1:CDS
CCTTCAACCACGGCAAAGCC+CGG 0.518891 5:+7980757 None:intergenic
ACAACTTCTTAAATCTCTCT+AGG 0.519282 5:+7980420 None:intergenic
TTGCTTCATGTGAACCATTG+AGG 0.519399 5:-7980578 MsaT025408.1:CDS
GATTATAGTGATGGTTCTGT+TGG 0.524315 5:-7980486 MsaT025408.1:CDS
ACGGCGTCAGAAGGAGTTAA+CGG 0.524819 5:+7981053 None:intergenic
TATACCAGCATGAGGAAAGA+AGG 0.530072 5:+7981749 None:intergenic
ACCGACGGTACCTTCAACCA+CGG 0.534359 5:+7980747 None:intergenic
AAACATGGCCTGGCCCAGAT+AGG 0.535009 5:-7980908 MsaT025408.1:CDS
TAGAATATAACGGCGTCAGA+AGG 0.539306 5:+7981044 None:intergenic
AAAAGAAACCTATCTGGGCC+AGG 0.540432 5:+7980900 None:intergenic
GCTTGGTGACCCCATTTGCA+GGG 0.548286 5:-7981783 MsaT025408.1:CDS
GTTGAAAGGACATGTGAAGT+TGG 0.549405 5:-7981839 MsaT025408.1:CDS
AAGAGAGAAAGTTGGTCACT+AGG 0.553217 5:+7981815 None:intergenic
CTCTCGAACAATTACACTAA+CGG 0.553584 5:+7981898 None:intergenic
AAAGAGTAGAAGCAGTTGAA+AGG 0.557149 5:-7981853 MsaT025408.1:CDS
TATTATGCGCAAACCCACAA+AGG 0.558832 5:+7980640 None:intergenic
AGAAGGAGTTAACGGAATGA+TGG 0.559153 5:+7981061 None:intergenic
GGAGATCCCTGGCATAGACT+TGG 0.559706 5:+7980455 None:intergenic
TGAGGTATACCAAACCTCAA+TGG 0.563011 5:+7980564 None:intergenic
TGGCTATGGAATGTGAGTGT+GGG 0.565021 5:-7980617 MsaT025408.1:CDS
ACGGGGTTGACGAGAATTGA+CGG 0.566648 5:+7981119 None:intergenic
AAAACTCTACGGTAGAGAAA+CGG 0.566914 5:+7981015 None:intergenic
GCCGTGGTTGAAGGTACCGT+CGG 0.570164 5:-7980748 MsaT025408.1:CDS
ACTGTAGGACCCACTTGGTA+CGG 0.571473 5:+7980935 None:intergenic
TTGACACTGTAGGACCCACT+TGG 0.573131 5:+7980930 None:intergenic
AGTGGCGGACCCTGCAAATG+GGG 0.573181 5:+7981774 None:intergenic
TGAATATTCATATATGGCAA+CGG 0.574189 5:-7981207 MsaT025408.1:CDS
ATTATGCGCAAACCCACAAA+GGG 0.577889 5:+7980641 None:intergenic
TTCGTGTTTCTCCTAATCAA+CGG 0.578954 5:-7981428 MsaT025408.1:intron
GAGGCATGGTTTAAAGATAA+CGG 0.582283 5:-7981233 MsaT025408.1:CDS
CTACGGTAGAGAAACGGTTA+CGG 0.585607 5:+7981021 None:intergenic
AGGCCCAAAGAAGGTGAAGA+TGG 0.590583 5:-7980670 MsaT025408.1:CDS
GGTCCAAAAGAAACCTATCT+GGG 0.592928 5:+7980895 None:intergenic
TGTCGGTGAAGAGAGAAAGT+TGG 0.598088 5:+7981807 None:intergenic
TGTGAATATATACCAGCATG+AGG 0.601698 5:+7981741 None:intergenic
GTTTGCGCATAATATGGCTA+TGG 0.608909 5:-7980631 MsaT025408.1:CDS
ATGGCTATGGAATGTGAGTG+TGG 0.610584 5:-7980618 MsaT025408.1:CDS
ACGGTTACGGTAGAATATAA+CGG 0.610597 5:+7981034 None:intergenic
GGCTATGGAATGTGAGTGTG+GGG 0.614225 5:-7980616 MsaT025408.1:CDS
CTTAAAATAGCCCAAGAACA+AGG 0.618666 5:+7980870 None:intergenic
AAATAGCCCAAGAACAAGGT+GGG 0.635584 5:+7980874 None:intergenic
GCATGAGGAAAGAAGGTGAG+TGG 0.642413 5:+7981756 None:intergenic
CTAAACAAATCCGGAACCGA+CGG 0.646252 5:+7980732 None:intergenic
GGTCCTACAGTGTCAAAACA+TGG 0.647080 5:-7980923 MsaT025408.1:CDS
GTGTGGGGTTGTGGCTACTG+AGG 0.648130 5:-7980601 MsaT025408.1:CDS
AATGGGGTCACCAAGCATGT+CGG 0.667448 5:+7981790 None:intergenic
AAAATAGCCCAAGAACAAGG+TGG 0.667856 5:+7980873 None:intergenic
TGAGGAAAGAAGGTGAGTGG+CGG 0.676708 5:+7981759 None:intergenic
ATTGGACCAAGTCTATGCCA+GGG 0.683595 5:-7980461 MsaT025408.1:CDS
TTGTTCTGTGAGCATAAACG+GGG 0.686756 5:+7981102 None:intergenic
AAGCGAGTTTGGTGTAAACT+GGG 0.687492 5:+7981463 None:intergenic
GTTGATTAGGAGAAACACGA+AGG 0.743361 5:+7981430 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 7980428 7981936 7980428 ID=MsaG025408
Chr5 mRNA 7980428 7981936 7980428 ID=MsaT025408.1;Parent=MsaG025408
Chr5 exon 7980428 7981292 7980428 ID=MsaT025408.1.exon3;Parent=MsaT025408.1
Chr5 CDS 7980428 7981292 7980428 ID=cds.MsaT025408.1;Parent=MsaT025408.1
Chr5 exon 7981429 7981592 7981429 ID=MsaT025408.1.exon2;Parent=MsaT025408.1
Chr5 CDS 7981429 7981592 7981429 ID=cds.MsaT025408.1;Parent=MsaT025408.1
Chr5 exon 7981754 7981936 7981754 ID=MsaT025408.1.exon1;Parent=MsaT025408.1
Chr5 CDS 7981754 7981936 7981754 ID=cds.MsaT025408.1;Parent=MsaT025408.1
Gene Sequence

>MsaT025408.1

ATGAGAGTTGATGAATCCGTTAGTGTAATTGTTCGAGAGTTCGAAGTTAATAAAGACAAAGAAAGAGTAGAAGCAGTTGAAAGGACATGTGAAGTTGGACCTAGTGACCAACTTTCTCTCTTCACCGACATGCTTGGTGACCCCATTTGCAGGGTCCGCCACTCACCTTCTTTCCTCATGCTGGTGGCTGAAATTGATAAAGAAATAGTTGGAATGATAAGAGGATGCATAAAAACAGTTACATGCGGTAAAAACGTCTCAAGATCGAAAACATCTCTCACTAAACACATCCCAGTTTACACCAAACTCGCTTACATTTTAGGCCTTCGTGTTTCTCCTAATCAACGGAGAATGGGAATAGGGTTGAAGCTAGTGAAAAAAATGGAGGCATGGTTTAAAGATAACGGCGCTGAATATTCATATATGGCAACGGAAACCGAAAATTTAGCATCCGTTAAACTCTTCACTGAAAAATGCGGTTATTCAAAGTTCCGTACACCGTCAATTCTCGTCAACCCCGTTTATGCTCACAGAACAAAAATTTCAAGAAAAGTCACCATCATTCCGTTAACTCCTTCTGACGCCGTTATATTCTACCGTAACCGTTTCTCTACCGTAGAGTTTTTCCCTAATGACATTGACGCTGTTCTTAATAACAAACTTAATCTAGGTACTTTTCTTGCCGTACCAAGTGGGTCCTACAGTGTCAAAACATGGCCTGGCCCAGATAGGTTTCTTTTGGACCCACCTTGTTCTTGGGCTATTTTAAGTGTTTGGAATTCTAAAGAGGTTTTTAAGCTCGAGGTACGTGGCGCGTCGCGTGTCAAGCGCGGGCTTGCTAAAACGACACGTATTTTGGACCGGGCTTTGCCGTGGTTGAAGGTACCGTCGGTTCCGGATTTGTTTAGGCCTTTTGGGTTTCATTTTTTGTATGGGCTTGGGGGTGAAGGCCCAAAGAAGGTGAAGATGGTTAAGGCCCTTTGTGGGTTTGCGCATAATATGGCTATGGAATGTGAGTGTGGGGTTGTGGCTACTGAGGTTGCTTCATGTGAACCATTGAGGTTTGGTATACCTCATTGGAAAATGTTATCTTGTGCTAATGATTTATGGTGTATTAAGAGGCTTGTTGATGATTATAGTGATGGTTCTGTTGGTGATTGGACCAAGTCTATGCCAGGGATCTCCATTTTTGTGGATCCTAGAGAGATTTAA
Protein sequence

>MsaT025408.1

MRVDESVSVIVREFEVNKDKERVEAVERTCEVGPSDQLSLFTDMLGDPICRVRHSPSFLMLVAEIDKEIVGMIRGCIKTVTCGKNVSRSKTSLTKHIPVYTKLAYILGLRVSPNQRRMGIGLKLVKKMEAWFKDNGAEYSYMATETENLASVKLFTEKCGYSKFRTPSILVNPVYAHRTKISRKVTIIPLTPSDAVIFYRNRFSTVEFFPNDIDAVLNNKLNLGTFLAVPSGSYSVKTWPGPDRFLLDPPCSWAILSVWNSKEVFKLEVRGASRVKRGLAKTTRILDRALPWLKVPSVPDLFRPFGFHFLYGLGGEGPKKVKMVKALCGFAHNMAMECECGVVATEVASCEPLRFGIPHWKMLSCANDLWCIKRLVDDYSDGSVGDWTKSMPGISIFVDPREI*