AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene054473


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 0 sgRNAs with CRISPR-Local

Find 131 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAAATTTTCAAGATTTGTTA+AGG + 42364:10344-10363 None:intergenic 15.0%
!!! AAACAGTTTTCATAAATTTT+TGG - 42364:9193-9212 MS.gene054473:CDS 15.0%
!!! AACAGTTTTCATAAATTTTT+GGG - 42364:9194-9213 MS.gene054473:CDS 15.0%
!!! ACAAATCTTGAAAATTTTAA+AGG - 42364:10346-10365 MS.gene054473:intron 15.0%
!!! ATTTTTTTGTATTTACACAA+AGG - 42364:10857-10876 MS.gene054473:CDS 15.0%
!!! GTATTTTTTTTTCTTTTTTC+AGG - 42364:9943-9962 MS.gene054473:intron 15.0%
!!! GTTTATTATTTACTTTTTGA+GGG - 42364:10816-10835 MS.gene054473:CDS 15.0%
!!! TGTTTATTATTTACTTTTTG+AGG - 42364:10815-10834 MS.gene054473:CDS 15.0%
!!! TTTTTTTGTATTTACACAAA+GGG - 42364:10858-10877 MS.gene054473:CDS 15.0%
!! AAAAAATACATAAGCATGTT+TGG + 42364:9932-9951 None:intergenic 20.0%
! AAATGATTAACTAAGAAGGA+TGG + 42364:9553-9572 None:intergenic 25.0%
! AAGGAAGAAATGAACTTAAA+TGG - 42364:10460-10479 MS.gene054473:intron 25.0%
! ACCATTATTGTTCTATGAAA+AGG - 42364:10222-10241 MS.gene054473:intron 25.0%
! ATAACAATGTAACATGCAAA+TGG - 42364:8892-8911 MS.gene054473:intron 25.0%
! ATTTAGTCTCAAATTTACTG+TGG - 42364:9794-9813 MS.gene054473:intron 25.0%
! CAAATGTCATATATTTCAGA+CGG - 42364:10002-10021 MS.gene054473:intron 25.0%
! CATGAAATTATATGTAGATG+AGG - 42364:10126-10145 MS.gene054473:intron 25.0%
! CATGTTACATTGTTATAGTA+AGG + 42364:8888-8907 None:intergenic 25.0%
! CCATTATTGTTCTATGAAAA+GGG - 42364:10223-10242 MS.gene054473:intron 25.0%
! CTAAATTAACCCATCTAAAT+TGG + 42364:9320-9339 None:intergenic 25.0%
! TCACTATTATGGTTACAAAA+TGG - 42364:10297-10316 MS.gene054473:intron 25.0%
! TGTGAAATGATTAACTAAGA+AGG + 42364:9557-9576 None:intergenic 25.0%
! TTTACAATGATTGTGTTCAT+TGG - 42364:10653-10672 MS.gene054473:CDS 25.0%
!! AATTGAGTTGCATTAAACAA+CGG + 42364:9005-9024 None:intergenic 25.0%
!!! GTTTTCATAAATTTTTGGGT+TGG - 42364:9198-9217 MS.gene054473:CDS 25.0%
!!! GTTTTTTTTTTCAAAAGAGC+AGG - 42364:9148-9167 MS.gene054473:CDS 25.0%
!!! TTAAAGGTGTGACATTTTTT+AGG - 42364:10362-10381 MS.gene054473:intron 25.0%
AAACCAAACATTCACTAAGA+TGG + 42364:9634-9653 None:intergenic 30.0%
AATCCATCTTAGTGAATGTT+TGG - 42364:9628-9647 MS.gene054473:intron 30.0%
ATAGCATGTCCATAGTTATT+AGG + 42364:10616-10635 None:intergenic 30.0%
ATGAAAAAACCTTGATGTCA+CGG + 42364:9400-9419 None:intergenic 30.0%
ATGGTTACAAAATGGCATTT+AGG - 42364:10305-10324 MS.gene054473:intron 30.0%
CAAGTTAGAATCAATTCTAG+AGG + 42364:9740-9759 None:intergenic 30.0%
GATCATTACTTACTTGACTT+AGG + 42364:9109-9128 None:intergenic 30.0%
GTATTTATGAGAAACATCCT+CGG + 42364:9978-9997 None:intergenic 30.0%
TAATAACTATGGACATGCTA+TGG - 42364:10615-10634 MS.gene054473:intron 30.0%
TAGCATGTCCATAGTTATTA+GGG + 42364:10615-10634 None:intergenic 30.0%
TATGAAAAGGGTAAACTTGT+TGG - 42364:10235-10254 MS.gene054473:intron 30.0%
TATTTATGAGAAACATCCTC+GGG + 42364:9977-9996 None:intergenic 30.0%
TCTAACTTGAAGCTAGAATT+CGG - 42364:9751-9770 MS.gene054473:intron 30.0%
TTCATTTCTTCCTTGCTAAA+TGG + 42364:10454-10473 None:intergenic 30.0%
TTGTATTTACACAAAGGGTA+GGG - 42364:10863-10882 MS.gene054473:CDS 30.0%
TTTGTATTTACACAAAGGGT+AGG - 42364:10862-10881 MS.gene054473:CDS 30.0%
! CCCTTTTCATAGAACAATAA+TGG + 42364:10226-10245 None:intergenic 30.0%
! GGAAAGAAAATGGTTTTTGT+TGG - 42364:9041-9060 MS.gene054473:intron 30.0%
! TGAATGTTTGGTTTCACATT+TGG - 42364:9640-9659 MS.gene054473:intron 30.0%
! TGAATTTAAAGTAGCACAAG+AGG - 42364:10516-10535 MS.gene054473:intron 30.0%
! TTTTTGTTGGAGATTCTGTT+GGG - 42364:9054-9073 MS.gene054473:intron 30.0%
AAAACTGCATGAAGTTTGGT+AGG - 42364:8928-8947 MS.gene054473:intron 35.0%
AACTCATTCCATGTATCAAC+TGG + 42364:10691-10710 None:intergenic 35.0%
AAGAAGGATGGATACAATCA+AGG + 42364:9541-9560 None:intergenic 35.0%
AATTGGATTCCTCATTCTGA+AGG - 42364:8861-8880 MS.gene054473:intron 35.0%
ACAGATCTTGCTCACTATTA+TGG - 42364:10286-10305 MS.gene054473:intron 35.0%
ACCAAGGGTGAAATTGTAAT+CGG + 42364:10038-10057 None:intergenic 35.0%
ACCATACTTTGTGAGATCAA+AGG - 42364:10069-10088 MS.gene054473:intron 35.0%
AGAAGGATGGATACAATCAA+GGG + 42364:9540-9559 None:intergenic 35.0%
AGGGAACAAGGATAAAAACA+AGG + 42364:9516-9535 None:intergenic 35.0%
ATTATCTAAGAATGCAACCG+TGG - 42364:9477-9496 MS.gene054473:intron 35.0%
ATTATGTTGTTGAGACCTGA+TGG - 42364:10586-10605 MS.gene054473:intron 35.0%
CATAAGCATGTTTGGTTATC+TGG + 42364:9924-9943 None:intergenic 35.0%
CATTACTTACTTGACTTAGG+AGG + 42364:9106-9125 None:intergenic 35.0%
GAACAAAACTGCATGAAGTT+TGG - 42364:8924-8943 MS.gene054473:intron 35.0%
GGTTGCATTCTTAGATAATG+CGG + 42364:9476-9495 None:intergenic 35.0%
GTACAAAGTCACACATCTTA+TGG - 42364:10730-10749 MS.gene054473:CDS 35.0%
TCAAAGGATGCTGACAAAAA+TGG - 42364:10085-10104 MS.gene054473:intron 35.0%
TCCTTTGATCTCACAAAGTA+TGG + 42364:10073-10092 None:intergenic 35.0%
TCTCCATTCTCAAAATGTGA+TGG + 42364:10397-10416 None:intergenic 35.0%
TGTATTTACACAAAGGGTAG+GGG - 42364:10864-10883 MS.gene054473:CDS 35.0%
! AAAGGATGTGACATCTTTTC+TGG - 42364:8837-8856 MS.gene054473:CDS 35.0%
! ATGTTTGGTTTCACATTTGG+AGG - 42364:9643-9662 MS.gene054473:intron 35.0%
! GCTTGTTAGAGGAAAGAAAA+TGG - 42364:9031-9050 MS.gene054473:intron 35.0%
! GGAGGAAAAATTGATTCTAG+AGG - 42364:9664-9683 MS.gene054473:intron 35.0%
! GGTTATCTGGTGTCAAAAAT+TGG + 42364:9911-9930 None:intergenic 35.0%
! GTTTTTGTTGGAGATTCTGT+TGG - 42364:9053-9072 MS.gene054473:intron 35.0%
!! CAATTCTTAGAGCTTGTTAG+AGG - 42364:9020-9039 MS.gene054473:intron 35.0%
!! CACATTTTGAGAATGGAGAT+TGG - 42364:10398-10417 MS.gene054473:intron 35.0%
!! GTGACATCTTTTCTGGTAAT+TGG - 42364:8844-8863 MS.gene054473:intron 35.0%
!! TCTCCATCACATTTTGAGAA+TGG - 42364:10391-10410 MS.gene054473:intron 35.0%
!!! TTTTCCTCACTGATTTGTGT+TGG - 42364:9421-9440 MS.gene054473:CDS 35.0%
AATGGAGATTGGAACAAAGG+AGG - 42364:10409-10428 MS.gene054473:intron 40.0%
ATGAGTATCTTCGTTGGAGA+TGG - 42364:8958-8977 MS.gene054473:intron 40.0%
ATGGAGATTGGAACAAAGGA+GGG - 42364:10410-10429 MS.gene054473:intron 40.0%
CTTGTTGGATGCAACAAATG+TGG - 42364:10250-10269 MS.gene054473:intron 40.0%
GACATAGTGATCATTTCAGC+AGG - 42364:10184-10203 MS.gene054473:intron 40.0%
GAGAATGGAGATTGGAACAA+AGG - 42364:10406-10425 MS.gene054473:intron 40.0%
GAGGACAAAACCATTTAGCA+AGG - 42364:10441-10460 MS.gene054473:intron 40.0%
GATGGACACCCTAATAACTA+TGG - 42364:10604-10623 MS.gene054473:intron 40.0%
GATGGATACAATCAAGGGAA+GGG + 42364:9535-9554 None:intergenic 40.0%
TAACCCATCTAAATTGGCAC+CGG + 42364:9314-9333 None:intergenic 40.0%
TAGATGAGGTAGATGAAGCA+TGG - 42364:10140-10159 MS.gene054473:intron 40.0%
TAGTAAGGTCCTTCAGAATG+AGG + 42364:8873-8892 None:intergenic 40.0%
TGATCATTTCAGCAGGACAT+TGG - 42364:10191-10210 MS.gene054473:intron 40.0%
TGGATGCAACAAATGTGGAA+TGG - 42364:10255-10274 MS.gene054473:intron 40.0%
! ATTTCACCCTTGGTAATCTG+TGG - 42364:10044-10063 MS.gene054473:intron 40.0%
! TAGTTATTAGGGTGTCCATC+AGG + 42364:10604-10623 None:intergenic 40.0%
! TGTGTTCATTGGTGTTTACC+TGG - 42364:10664-10683 MS.gene054473:CDS 40.0%
! TTTGGTTTCACATTTGGAGG+AGG - 42364:9646-9665 MS.gene054473:intron 40.0%
!! CAAGAGGAAGCATCAAAGAA+AGG - 42364:10532-10551 MS.gene054473:intron 40.0%
!!! AAGGTTTTAAATCGCAGCCA+CGG + 42364:9497-9516 None:intergenic 40.0%
!!! CATAAATTTTTGGGTTGGCC+TGG - 42364:9203-9222 MS.gene054473:CDS 40.0%
AACCCATCTAAATTGGCACC+GGG + 42364:9313-9332 None:intergenic 45.0%
AACGGAAGCTCGCATTCATT+TGG + 42364:8987-9006 None:intergenic 45.0%
ACAAAGGAGGGAATTGTGTG+AGG - 42364:10422-10441 MS.gene054473:intron 45.0%
ACAATCAAGGGAAGGGAACA+AGG + 42364:9528-9547 None:intergenic 45.0%
AGATCGAACCTGATAACTCG+AGG + 42364:9262-9281 None:intergenic 45.0%
AGTCTCAAACCAATACCACC+AGG + 42364:9224-9243 None:intergenic 45.0%
ATGGTGACCACAGATTACCA+AGG + 42364:10054-10073 None:intergenic 45.0%
CAACGAAGATACTCATCGTC+CGG + 42364:8954-8973 None:intergenic 45.0%
GCCGATTACAATTTCACCCT+TGG - 42364:10034-10053 MS.gene054473:intron 45.0%
GGATGGATACAATCAAGGGA+AGG + 42364:9536-9555 None:intergenic 45.0%
TGGTGACCACAGATTACCAA+GGG + 42364:10053-10072 None:intergenic 45.0%
TTCCATGTATCAACTGGTCC+AGG + 42364:10685-10704 None:intergenic 45.0%
! TACCTGGACCAGTTGATACA+TGG - 42364:10680-10699 MS.gene054473:CDS 45.0%
!!! AAATTTTTGGGTTGGCCTGG+TGG - 42364:9206-9225 MS.gene054473:CDS 45.0%
ACCCATCTAAATTGGCACCG+GGG + 42364:9312-9331 None:intergenic 50.0%
CGGACGATGAGTATCTTCGT+TGG - 42364:8952-8971 MS.gene054473:intron 50.0%
CTGCATGAAGTTTGGTAGGC+CGG - 42364:8932-8951 MS.gene054473:intron 50.0%
GAATCGAACCTGATACCTCG+AGG + 42364:9288-9307 None:intergenic 50.0%
GCGACCAACACAAATCAGTG+AGG + 42364:9428-9447 None:intergenic 50.0%
GTATCAGGTTCGATTCTCCC+CGG - 42364:9292-9311 MS.gene054473:CDS 50.0%
TCGAACCTGATAACTCGAGG+AGG + 42364:9259-9278 None:intergenic 50.0%
! TCCCCGGTGCCAATTTAGAT+GGG - 42364:9308-9327 MS.gene054473:CDS 50.0%
CGACTTGAGCCGTGACATCA+AGG - 42364:9388-9407 MS.gene054473:CDS 55.0%
GTGCTCCTCCTCGAGTTATC+AGG - 42364:9251-9270 MS.gene054473:CDS 55.0%
TCGAACCTGATACCTCGAGG+AGG + 42364:9285-9304 None:intergenic 55.0%
! CTCCCCGGTGCCAATTTAGA+TGG - 42364:9307-9326 MS.gene054473:CDS 55.0%
! GATCTCCTCCTCGAGGTATC+AGG - 42364:9277-9296 MS.gene054473:CDS 55.0%
!! TTGGGTTGGCCTGGTGGTAT+TGG - 42364:9212-9231 MS.gene054473:CDS 55.0%
!! TTTTCAGGCGTCTCAACCCG+AGG - 42364:9958-9977 MS.gene054473:intron 55.0%
CACGGCTCAAGTCGCAGTCA+CGG + 42364:9382-9401 None:intergenic 60.0%
CAGGTTCGATCTCCTCCTCG+AGG - 42364:9270-9289 MS.gene054473:CDS 60.0%


Chromosome Type Strat End Strand Name
42364 gene 8832 10905 8832 ID=MS.gene054473
42364 mRNA 8832 10905 8832 ID=MS.gene054473.t1;Parent=MS.gene054473
42364 exon 10622 10905 10622 ID=MS.gene054473.t1.exon1;Parent=MS.gene054473.t1
42364 CDS 10622 10905 10622 ID=cds.MS.gene054473.t1;Parent=MS.gene054473.t1
42364 exon 9101 9493 9101 ID=MS.gene054473.t1.exon2;Parent=MS.gene054473.t1
42364 CDS 9101 9493 9101 ID=cds.MS.gene054473.t1;Parent=MS.gene054473.t1
42364 exon 8832 8858 8832 ID=MS.gene054473.t1.exon3;Parent=MS.gene054473.t1
42364 CDS 8832 8858 8832 ID=cds.MS.gene054473.t1;Parent=MS.gene054473.t1
Gene Sequence

>MS.gene054473

AAACAAAAGGATGTGACATCTTTTCTGGTAATTGGATTCCTCATTCTGAAGGACCTTACTATAACAATGTAACATGCAAATGGATGATTGATGAACAAAACTGCATGAAGTTTGGTAGGCCGGACGATGAGTATCTTCGTTGGAGATGGAAACCAAATGAATGCGAGCTTCCGTTGTTTAATGCAACTCAATTCTTAGAGCTTGTTAGAGGAAAGAAAATGGTTTTTGTTGGAGATTCTGTTGGGAGAAATCAGTTGCAATCTTTGTTGTGCCTCCTAAGTCAAGTAAGTAATGATCAACTCATACTGTTTTCTCTGTTTTTTTTTTCAAAAGAGCAGGAGAATTTTTTTTTGTTTACATCAAACAGTTTTCATAAATTTTTGGGTTGGCCTGGTGGTATTGGTTTGAGACTTGAGAGTGTGCTCCTCCTCGAGTTATCAGGTTCGATCTCCTCCTCGAGGTATCAGGTTCGATTCTCCCCGGTGCCAATTTAGATGGGTTAATTTAGTTTCTTCAAAAAAAGTTTTCATAACATAGTATACTATGTCCGTGACTGCGACTTGAGCCGTGACATCAAGGTTTTTTCATGTTTTCCTCACTGATTTGTGTTGGTCGCGTCAATCGTATTTGATTGTGATTCTCCGCATTATCTAAGAATGCAACCGTGGCTGCGATTTAAAACCTTGTTTTTATCCTTGTTCCCTTCCCTTGATTGTATCCATCCTTCTTAGTTAATCATTTCACAAATGTTTACACAAATTTTTGTTGATGATCTTGTCTGCATAGTTATATTGCAAATCCATCTTAGTGAATGTTTGGTTTCACATTTGGAGGAGGAAAAATTGATTCTAGAGGTGTAAAATTAATTTTGACATGCTTCGATGTTTTAAAGTAAATTGATTTTGCCTCTAGAATTGATTCTAACTTGAAGCTAGAATTCGGAACTTTTGACTCTACGATTAATTTAGTCTCAAATTTACTGTGGAACTCACTTTTTCATTTATATATCTAAAATCAATTTACATTCAACTCACTTTTAGCTAGAATCTATTTGACAAAATCAATTATATACAAAACCAATTTTTGACACCAGATAACCAAACATGCTTATGTATTTTTTTTTCTTTTTTCAGGCGTCTCAACCCGAGGATGTTTCTCATAAATACACAACAAATGTCATATATTTCAGACGGTATTTCTTCGCCGATTACAATTTCACCCTTGGTAATCTGTGGTCACCATACTTTGTGAGATCAAAGGATGCTGACAAAAATGGTCATTCATACAACAGCATCATGAAATTATATGTAGATGAGGTAGATGAAGCATGGTCTAGTCAAGTTAAAAACTTTGACATAGTGATCATTTCAGCAGGACATTGGTTTTTTAGACCATTATTGTTCTATGAAAAGGGTAAACTTGTTGGATGCAACAAATGTGGAATGGAGAATGTAACAGATCTTGCTCACTATTATGGTTACAAAATGGCATTTAGGACTGCATTTAAAACCTTAACAAATCTTGAAAATTTTAAAGGTGTGACATTTTTTAGGACATTTTCTCCATCACATTTTGAGAATGGAGATTGGAACAAAGGAGGGAATTGTGTGAGGACAAAACCATTTAGCAAGGAAGAAATGAACTTAAATGGTTACATTCTTGAGACATATTTAACACAAGTGAATGAATTTAAAGTAGCACAAGAGGAAGCATCAAAGAAAGGTTTGAAATTTTTGATGTTAAATACAACTGAAATTATGTTGTTGAGACCTGATGGACACCCTAATAACTATGGACATGCTATGGTAAAAAATGTGACATTTTACAATGATTGTGTTCATTGGTGTTTACCTGGACCAGTTGATACATGGAATGAGTTTTTGCTATATATGTTGAATGTACAAAGTCACACATCTTATGGTTCAAAGCTAGAGAGTGTTTTATGAAAATAAGATTTACATATGTTAACTATATTGAAGAGATTGTTTATTATTTACTTTTTGAGGGTTTGCTTACTCTATTGTAATTTTTTTGTATTTACACAAAGGGTAGGGGAAATGATGAAAGAGATTGA

Protein sequence

>MS.gene054473.t1

KQKDVTSFLVIGFLILKDLTITMUHANGULMNKTAUSLVGRTMSIFVGDGNQMNASFRCLMQLNSUSLLEERKWFLLEILLGEISCNLCCASUVKVNLLDATNVEWRMUQILLTIMVTKWHLGLHLKPUQILKILKVUHFLGHFLHHILRMEIGTKEGIVUGQNHLARKKUTUMVTFLRHIUHKUMNLKUHKRKHQRKVUNFUCUIQLKLCCUDLMDTLITMDMLWVGEMMKEI