AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene36483

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene36483.t1 MTR_4g096660 96.565 262 9 0 1 262 1 262 0.0 529
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene36483.t1 AT1G29950 41.126 231 115 7 49 261 18 245 8.92e-39 136
MS.gene36483.t1 AT1G29950 41.126 231 115 7 49 261 18 245 8.92e-39 136

Find 59 sgRNAs with CRISPR-Local

Find 66 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCAAAGACAATGAAATTCTT+AGG 0.183604 4.1:-18387771 None:intergenic
AATGGACACCGTTACCGTTT+TGG 0.230492 4.1:+18388226 MS.gene36483:CDS
CCTTGATTTCGTGCAGTAAC+TGG 0.271176 4.1:-18388069 None:intergenic
GCTCCACATGGTTCTGCCTT+TGG 0.304746 4.1:+18387639 MS.gene36483:CDS
GCTCCACATGCTTCTGCTTT+CGG 0.312643 4.1:+18387603 MS.gene36483:CDS
TTAAACTTGTAGGTCGTTGC+AGG 0.347647 4.1:-18387828 None:intergenic
AAAGGACGTACTGCCTTTCC+CGG 0.382439 4.1:-18387549 None:intergenic
ATCAAACAGATCAACAAAAC+AGG 0.423904 4.1:+18387793 MS.gene36483:CDS
GAAGGATAAAATTAATCAAA+TGG 0.430828 4.1:+18387896 MS.gene36483:CDS
AAACGGTAACGGTGTCCATT+TGG 0.432703 4.1:-18388223 None:intergenic
TCCATTTGGTTGCCTCCACC+AGG 0.433945 4.1:-18388209 None:intergenic
GGGAAAGGCAGTACGTCCTT+TGG 0.456169 4.1:+18387551 MS.gene36483:CDS
TCATCCGCACATAACTCGTC+AGG 0.457509 4.1:+18388107 MS.gene36483:CDS
CAAAGACAATGAAATTCTTA+GGG 0.464787 4.1:-18387770 None:intergenic
AGAAATATCGTGCCTGGTGG+AGG 0.468154 4.1:+18388197 MS.gene36483:CDS
TGCAAGTTAAACCTTTCAAA+TGG 0.471021 4.1:-18387732 None:intergenic
CCAGTTACTGCACGAAATCA+AGG 0.478607 4.1:+18388069 MS.gene36483:CDS
GCCGGGACTGTTAAACTTGT+AGG 0.478819 4.1:-18387838 None:intergenic
TAAAATTAATCAAATGGAAA+CGG 0.485866 4.1:+18387902 MS.gene36483:CDS
ACCTACAAGTTTAACAGTCC+CGG 0.485914 4.1:+18387837 MS.gene36483:CDS
AAGGTTGAAGTCGAGCAATT+CGG 0.492781 4.1:+18388278 MS.gene36483:CDS
GCCTGGTGGAGGCAACCAAA+TGG 0.494134 4.1:+18388208 MS.gene36483:CDS
CTTCTAGTTCATCCGAGTCT+AGG 0.499152 4.1:-18387977 None:intergenic
ACTCGCACTTGGAGGTAAAA+CGG 0.500512 4.1:-18387700 None:intergenic
GTCAGATAACACCATTTGAA+AGG 0.508642 4.1:+18387721 MS.gene36483:CDS
GGTGTTATCTGACTCGCACT+TGG 0.524930 4.1:-18387711 None:intergenic
CAGTGAAAAGAAACAACACT+TGG 0.526852 4.1:+18388148 MS.gene36483:CDS
AGTAGCATGAGTGTTGAAGC+CGG 0.530258 4.1:-18387856 None:intergenic
CATAACTCGTCAGGGACAAA+GGG 0.532535 4.1:+18388116 MS.gene36483:CDS
GAAGTCGAGCAATTCGGAGT+TGG 0.534683 4.1:+18388284 MS.gene36483:CDS
TGGAGGTAAAACGGCATCAA+AGG 0.535639 4.1:-18387691 None:intergenic
ACATAACTCGTCAGGGACAA+AGG 0.541406 4.1:+18388115 MS.gene36483:CDS
AACAACACTTGGAGATGAAG+AGG 0.542117 4.1:+18388159 MS.gene36483:CDS
GTTATCTGACTCGCACTTGG+AGG 0.545030 4.1:-18387708 None:intergenic
TTCTTAGGGCAAACCTCAGA+GGG 0.559386 4.1:-18387756 None:intergenic
AGCTTCGTCCAAAACGGTAA+CGG 0.571988 4.1:-18388234 None:intergenic
ATATTGAGAAATATCGTGCC+TGG 0.572011 4.1:+18388191 MS.gene36483:CDS
AAAATACCTCAAGTCTCTCA+AGG 0.572321 4.1:+18388259 MS.gene36483:CDS
GTAGCATGAGTGTTGAAGCC+GGG 0.574493 4.1:-18387855 None:intergenic
TGCATTGTTGAGCCTAGACT+CGG 0.583179 4.1:+18387965 MS.gene36483:CDS
CCTTTGGCAGATGAAGCCAT+TGG 0.588109 4.1:+18387567 MS.gene36483:CDS
AAGGACGTACTGCCTTTCCC+GGG 0.597633 4.1:-18387548 None:intergenic
AGCATTCATATAAGTACCAA+AGG 0.603461 4.1:-18387655 None:intergenic
AGCATTCATATAAGTGCCAA+TGG 0.605224 4.1:-18387583 None:intergenic
ACTTGTAGGTCGTTGCAGGA+TGG 0.612223 4.1:-18387824 None:intergenic
GTACCGAAAGCAGAAGCATG+TGG 0.618840 4.1:-18387606 None:intergenic
GCACGAAATCAAGGAAGAAG+AGG 0.621640 4.1:+18388078 MS.gene36483:CDS
CTTCAACCTTGAGAGACTTG+AGG 0.621750 4.1:-18388265 None:intergenic
GTTTAACTTGCAGCCCTCTG+AGG 0.624822 4.1:+18387743 MS.gene36483:CDS
GCATCAAAGGCAGAAGCATG+TGG 0.627838 4.1:-18387678 None:intergenic
ATTCTTAGGGCAAACCTCAG+AGG 0.643235 4.1:-18387757 None:intergenic
AAGAAGAAGTCAGCACTGCA+AGG 0.644914 4.1:+18388009 MS.gene36483:CDS
CCAATGGCTTCATCTGCCAA+AGG 0.645058 4.1:-18387567 None:intergenic
TTGAGAAATATCGTGCCTGG+TGG 0.655055 4.1:+18388194 MS.gene36483:CDS
ACACTTGGAGATGAAGAGGA+TGG 0.657366 4.1:+18388163 MS.gene36483:CDS
CATCCGCACATAACTCGTCA+GGG 0.664019 4.1:+18388108 MS.gene36483:CDS
ACTTACATGAATGCTCCACA+TGG 0.683680 4.1:+18387627 MS.gene36483:CDS
TGTCCCTGACGAGTTATGTG+CGG 0.691893 4.1:-18388111 None:intergenic
GTACCAAAGGCAGAACCATG+TGG 0.694870 4.1:-18387642 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAAAATTAATCAAATGGAAA+CGG + chr4.1:18387902-18387921 MS.gene36483:CDS 15.0%
!! GAAGGATAAAATTAATCAAA+TGG + chr4.1:18387896-18387915 MS.gene36483:CDS 20.0%
! CAAAGACAATGAAATTCTTA+GGG - chr4.1:18387773-18387792 None:intergenic 25.0%
! TCAAAGACAATGAAATTCTT+AGG - chr4.1:18387774-18387793 None:intergenic 25.0%
AGCATTCATATAAGTACCAA+AGG - chr4.1:18387658-18387677 None:intergenic 30.0%
ATCAAACAGATCAACAAAAC+AGG + chr4.1:18387793-18387812 MS.gene36483:CDS 30.0%
TGCAAGTTAAACCTTTCAAA+TGG - chr4.1:18387735-18387754 None:intergenic 30.0%
! ATTGTCATCTTCTTTTGTAG+AGG + chr4.1:18387926-18387945 MS.gene36483:CDS 30.0%
AAAATACCTCAAGTCTCTCA+AGG + chr4.1:18388259-18388278 MS.gene36483:CDS 35.0%
AGCATTCATATAAGTGCCAA+TGG - chr4.1:18387586-18387605 None:intergenic 35.0%
ATATTGAGAAATATCGTGCC+TGG + chr4.1:18388191-18388210 MS.gene36483:CDS 35.0%
CAGTGAAAAGAAACAACACT+TGG + chr4.1:18388148-18388167 MS.gene36483:CDS 35.0%
GTCAGATAACACCATTTGAA+AGG + chr4.1:18387721-18387740 MS.gene36483:CDS 35.0%
! TTCTTTTGTAGAGGACTCTA+AGG + chr4.1:18387935-18387954 MS.gene36483:CDS 35.0%
! TTTTACAGCTTCGTCCAAAA+CGG - chr4.1:18388243-18388262 None:intergenic 35.0%
!! TTGCACTCAAGATTTTGAGA+AGG + chr4.1:18387878-18387897 MS.gene36483:CDS 35.0%
AACAACACTTGGAGATGAAG+AGG + chr4.1:18388159-18388178 MS.gene36483:CDS 40.0%
AAGGTTGAAGTCGAGCAATT+CGG + chr4.1:18388278-18388297 MS.gene36483:CDS 40.0%
ACCTACAAGTTTAACAGTCC+CGG + chr4.1:18387837-18387856 MS.gene36483:CDS 40.0%
ACTTACATGAATGCTCCACA+TGG + chr4.1:18387627-18387646 MS.gene36483:CDS 40.0%
TTAAACTTGTAGGTCGTTGC+AGG - chr4.1:18387831-18387850 None:intergenic 40.0%
AAGAAGAAGTCAGCACTGCA+AGG + chr4.1:18388009-18388028 MS.gene36483:CDS 45.0%
ACACTTGGAGATGAAGAGGA+TGG + chr4.1:18388163-18388182 MS.gene36483:CDS 45.0%
ACATAACTCGTCAGGGACAA+AGG + chr4.1:18388115-18388134 MS.gene36483:CDS 45.0%
ACTCGCACTTGGAGGTAAAA+CGG - chr4.1:18387703-18387722 None:intergenic 45.0%
AGCTTCGTCCAAAACGGTAA+CGG - chr4.1:18388237-18388256 None:intergenic 45.0%
ATTCTTAGGGCAAACCTCAG+AGG - chr4.1:18387760-18387779 None:intergenic 45.0%
CATAACTCGTCAGGGACAAA+GGG + chr4.1:18388116-18388135 MS.gene36483:CDS 45.0%
CCAGTTACTGCACGAAATCA+AGG + chr4.1:18388069-18388088 MS.gene36483:CDS 45.0%
CCTTGATTTCGTGCAGTAAC+TGG - chr4.1:18388072-18388091 None:intergenic 45.0%
CTTCAACCTTGAGAGACTTG+AGG - chr4.1:18388268-18388287 None:intergenic 45.0%
GCACGAAATCAAGGAAGAAG+AGG + chr4.1:18388078-18388097 MS.gene36483:CDS 45.0%
TGCATTGTTGAGCCTAGACT+CGG + chr4.1:18387965-18387984 MS.gene36483:CDS 45.0%
TGGAGGTAAAACGGCATCAA+AGG - chr4.1:18387694-18387713 None:intergenic 45.0%
TTCTTAGGGCAAACCTCAGA+GGG - chr4.1:18387759-18387778 None:intergenic 45.0%
TTGAGAAATATCGTGCCTGG+TGG + chr4.1:18388194-18388213 MS.gene36483:CDS 45.0%
! AAACGGTAACGGTGTCCATT+TGG - chr4.1:18388226-18388245 None:intergenic 45.0%
! AATGGACACCGTTACCGTTT+TGG + chr4.1:18388226-18388245 MS.gene36483:CDS 45.0%
! ACTCACGAGTATTTTCTCCC+GGG + chr4.1:18387531-18387550 MS.gene36483:CDS 45.0%
! GACTCACGAGTATTTTCTCC+CGG + chr4.1:18387530-18387549 MS.gene36483:CDS 45.0%
!! AGTAGCATGAGTGTTGAAGC+CGG - chr4.1:18387859-18387878 None:intergenic 45.0%
!! CTTCTAGTTCATCCGAGTCT+AGG - chr4.1:18387980-18387999 None:intergenic 45.0%
AAAGGACGTACTGCCTTTCC+CGG - chr4.1:18387552-18387571 None:intergenic 50.0%
ACTTGTAGGTCGTTGCAGGA+TGG - chr4.1:18387827-18387846 None:intergenic 50.0%
AGAAATATCGTGCCTGGTGG+AGG + chr4.1:18388197-18388216 MS.gene36483:CDS 50.0%
CATCCGCACATAACTCGTCA+GGG + chr4.1:18388108-18388127 MS.gene36483:CDS 50.0%
CCAATGGCTTCATCTGCCAA+AGG - chr4.1:18387570-18387589 None:intergenic 50.0%
CCTTTGGCAGATGAAGCCAT+TGG + chr4.1:18387567-18387586 MS.gene36483:CDS 50.0%
GAAGTCGAGCAATTCGGAGT+TGG + chr4.1:18388284-18388303 MS.gene36483:CDS 50.0%
GCCGGGACTGTTAAACTTGT+AGG - chr4.1:18387841-18387860 None:intergenic 50.0%
GCTCCACATGCTTCTGCTTT+CGG + chr4.1:18387603-18387622 MS.gene36483:CDS 50.0%
GTACCAAAGGCAGAACCATG+TGG - chr4.1:18387645-18387664 None:intergenic 50.0%
TCATCCGCACATAACTCGTC+AGG + chr4.1:18388107-18388126 MS.gene36483:CDS 50.0%
TGTCCCTGACGAGTTATGTG+CGG - chr4.1:18388114-18388133 None:intergenic 50.0%
! CGAGTATTTTCTCCCGGGAA+AGG + chr4.1:18387536-18387555 MS.gene36483:CDS 50.0%
! GCATCAAAGGCAGAAGCATG+TGG - chr4.1:18387681-18387700 None:intergenic 50.0%
! GGTGTTATCTGACTCGCACT+TGG - chr4.1:18387714-18387733 None:intergenic 50.0%
! GTACCGAAAGCAGAAGCATG+TGG - chr4.1:18387609-18387628 None:intergenic 50.0%
! GTTATCTGACTCGCACTTGG+AGG - chr4.1:18387711-18387730 None:intergenic 50.0%
!! GTAGCATGAGTGTTGAAGCC+GGG - chr4.1:18387858-18387877 None:intergenic 50.0%
!! GTTTAACTTGCAGCCCTCTG+AGG + chr4.1:18387743-18387762 MS.gene36483:CDS 50.0%
AAGGACGTACTGCCTTTCCC+GGG - chr4.1:18387551-18387570 None:intergenic 55.0%
GGGAAAGGCAGTACGTCCTT+TGG + chr4.1:18387551-18387570 MS.gene36483:CDS 55.0%
TCCATTTGGTTGCCTCCACC+AGG - chr4.1:18388212-18388231 None:intergenic 55.0%
! GCTCCACATGGTTCTGCCTT+TGG + chr4.1:18387639-18387658 MS.gene36483:CDS 55.0%
GCCTGGTGGAGGCAACCAAA+TGG + chr4.1:18388208-18388227 MS.gene36483:CDS 60.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 18387525 18388313 18387525 ID=MS.gene36483
chr4.1 mRNA 18387525 18388313 18387525 ID=MS.gene36483.t1;Parent=MS.gene36483
chr4.1 exon 18387525 18388313 18387525 ID=MS.gene36483.t1.exon1;Parent=MS.gene36483.t1
chr4.1 CDS 18387525 18388313 18387525 ID=cds.MS.gene36483.t1;Parent=MS.gene36483.t1
Gene Sequence

>MS.gene36483

ATGCAGACTCACGAGTATTTTCTCCCGGGAAAGGCAGTACGTCCTTTGGCAGATGAAGCCATTGGCACTTATATGAATGCTCCACATGCTTCTGCTTTCGGTACTTACATGAATGCTCCACATGGTTCTGCCTTTGGTACTTATATGAATGCTCCACATGCTTCTGCCTTTGATGCCGTTTTACCTCCAAGTGCGAGTCAGATAACACCATTTGAAAGGTTTAACTTGCAGCCCTCTGAGGTTTGCCCTAAGAATTTCATTGTCTTTGATCAAACAGATCAACAAAACAGGATTTTGTTCCATCCTGCAACGACCTACAAGTTTAACAGTCCCGGCTTCAACACTCATGCTACTTGCACTCAAGATTTTGAGAAGGATAAAATTAATCAAATGGAAACGGAATTGTCATCTTCTTTTGTAGAGGACTCTAAGGACATTGATGCATTGTTGAGCCTAGACTCGGATGAACTAGAAGACTATGACGAAGAAGAAGTCAGCACTGCAAGGACTCATGAAAAAGATGATAGTACGTCTGATACTTGCTCCAGTTACTGCACGAAATCAAGGAAGAAGAGGTTGTTATCATCCGCACATAACTCGTCAGGGACAAAGGGTTACTGCATCAGTGAAAAGAAACAACACTTGGAGATGAAGAGGATGGTGAAAATATTGAGAAATATCGTGCCTGGTGGAGGCAACCAAATGGACACCGTTACCGTTTTGGACGAAGCTGTAAAATACCTCAAGTCTCTCAAGGTTGAAGTCGAGCAATTCGGAGTTGGACCGTGA
Protein sequence

>MS.gene36483.t1

MQTHEYFLPGKAVRPLADEAIGTYMNAPHASAFGTYMNAPHGSAFGTYMNAPHASAFDAVLPPSASQITPFERFNLQPSEVCPKNFIVFDQTDQQNRILFHPATTYKFNSPGFNTHATCTQDFEKDKINQMETELSSSFVEDSKDIDALLSLDSDELEDYDEEEVSTARTHEKDDSTSDTCSSYCTKSRKKRLLSSAHNSSGTKGYCISEKKQHLEMKRMVKILRNIVPGGGNQMDTVTVLDEAVKYLKSLKVEVEQFGVGP