AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480021912.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480021912.01.T01 MTR_4g078760 88.038 209 7 1 1 209 1 191 2.73e-131 368
MsG0480021912.01.T01 MTR_4g078760 86.124 209 6 2 1 209 1 186 1.76e-125 353
MsG0480021912.01.T01 MTR_6g038540 32.479 117 73 2 90 200 70 186 2.62e-13 67.0
MsG0480021912.01.T01 MTR_1g106775 29.126 103 72 1 110 211 124 226 1.67e-11 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480021912.01.T01 AT2G42770 63.743 171 47 1 39 209 49 204 1.32e-74 225
MsG0480021912.01.T01 AT5G43140 29.545 132 87 2 86 211 92 223 1.22e-15 73.6
MsG0480021912.01.T01 AT4G33905 30.147 136 86 3 86 215 96 228 1.53e-13 68.2
MsG0480021912.01.T01 AT2G14860 26.446 121 83 2 86 200 87 207 6.83e-11 60.5

Find 56 sgRNAs with CRISPR-Local

Find 87 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTCTTCCCACTTTACTTTA+TGG 0.111803 4:+65895588 MsG0480021912.01.T01:CDS
TCTTTGCATGGAACAATTTA+TGG 0.112525 4:+65895523 MsG0480021912.01.T01:CDS
CTGTCAGTGTATTAAATTTC+TGG 0.134675 4:+65895714 MsG0480021912.01.T01:CDS
CACATGGACCCAACACAATT+TGG 0.192502 4:-65895488 None:intergenic
CGCCGTCGTGGATCCGGTTT+CGG 0.228583 4:-65894730 None:intergenic
TGTCCAGAACCTAATGTTAA+AGG 0.277336 4:+65895341 MsG0480021912.01.T01:CDS
GGAATGGACGCGATTGGATT+TGG 0.287872 4:+65894676 None:intergenic
GCCGTCGTGGATCCGGTTTC+GGG 0.305344 4:-65894729 None:intergenic
AACATTAGGTTCTGGACATT+TGG 0.316911 4:-65895336 None:intergenic
GCCGCGTCGCTTACTCTTAC+TGG 0.346934 4:+65894832 MsG0480021912.01.T01:CDS
GGTTCTGGACATTTGGCTTT+GGG 0.347006 4:-65895329 None:intergenic
ACAAAAGCTTTCAGAGCTTC+CGG 0.364498 4:+65895548 MsG0480021912.01.T01:CDS
GAATGGACGCGATTGGATTT+GGG 0.369109 4:+65894677 None:intergenic
AGGTTCTGGACATTTGGCTT+TGG 0.375932 4:-65895330 None:intergenic
AGCATACTACCTTTAACATT+AGG 0.387279 4:-65895350 None:intergenic
CGGTCCAATTCGGGTTCAGC+TGG 0.388568 4:+65894760 MsG0480021912.01.T01:CDS
CTACCTTTAACATTAGGTTC+TGG 0.394352 4:-65895344 None:intergenic
GGAACCAGCTGAACCCGAAT+TGG 0.432799 4:-65894764 None:intergenic
AAACGACGCCGTCGTGGATC+CGG 0.446048 4:-65894736 None:intergenic
TTACTAAACCAAATTGTGTT+GGG 0.447561 4:+65895480 MsG0480021912.01.T01:CDS
CAGAAATTTAATACACTGAC+AGG 0.448515 4:-65895713 None:intergenic
GGAGACAATGGTCAAGCAAC+TGG 0.451380 4:-65895308 None:intergenic
GCTGGTTCCGCCGTCGGAGG+TGG 0.459499 4:+65894778 MsG0480021912.01.T01:CDS
TCTCTTTAGCTTTGTTCCAC+CGG 0.468029 4:-65894879 None:intergenic
CTGGAAGTGGGACCCGAAAC+CGG 0.475595 4:+65894717 MsG0480021912.01.T01:CDS
GAGTGGTGAAAATGCCTCTC+AGG 0.482368 4:+65894900 MsG0480021912.01.T01:CDS
GGTTCAGCTGGTTCCGCCGT+CGG 0.491942 4:+65894772 MsG0480021912.01.T01:CDS
TTTACTAAACCAAATTGTGT+TGG 0.492300 4:+65895479 MsG0480021912.01.T01:CDS
GACGCGATTGGATTTGGGAG+TGG 0.493904 4:+65894682 MsG0480021912.01.T01:CDS
GCTCTGCGAATGACTTCCTA+TGG 0.499911 4:+65895249 MsG0480021912.01.T01:CDS
AAGAACCAGGGCCATAGAAA+AGG 0.506838 4:-65895275 None:intergenic
TTATCAGTTTCCGCTGAAGC+AGG 0.512856 4:+65894801 MsG0480021912.01.T01:CDS
TGTGAGGGAATGGACGCGAT+TGG 0.517573 4:+65894670 None:intergenic
TGGTACCAGGCAAAAGAACC+AGG 0.517678 4:-65895288 None:intergenic
TTTGTACCATAAAGTAAAGT+GGG 0.532650 4:-65895594 None:intergenic
GTTTGTACCATAAAGTAAAG+TGG 0.534203 4:-65895595 None:intergenic
CATTTGGCTTTGGGAGACAA+TGG 0.544393 4:-65895320 None:intergenic
GCGGTTAACGCCTGCTTCAG+CGG 0.561673 4:-65894811 None:intergenic
CTGATAACCACCTCCGACGG+CGG 0.561979 4:-65894785 None:intergenic
TCATTGCGGTTATCTTTGCA+TGG 0.564794 4:+65895511 MsG0480021912.01.T01:CDS
ATGGTCAAGCAACTGGTACC+AGG 0.567339 4:-65895301 None:intergenic
TCAGCTGGTTCCGCCGTCGG+AGG 0.567431 4:+65894775 MsG0480021912.01.T01:CDS
CGATTGCTCAGCTCAGTAGC+CGG 0.582836 4:+65894860 MsG0480021912.01.T01:CDS
GACCGAAAACGACGCCGTCG+TGG 0.602795 4:-65894742 None:intergenic
AAGATAACCGCAATGACACA+TGG 0.607959 4:-65895504 None:intergenic
AAACTGATAACCACCTCCGA+CGG 0.626984 4:-65894788 None:intergenic
GCCATAGAAAAGGAATCCAT+AGG 0.637264 4:-65895265 None:intergenic
TTGCTCAGCTCAGTAGCCGG+TGG 0.657176 4:+65894863 MsG0480021912.01.T01:CDS
ACCCGAAACCGGATCCACGA+CGG 0.660265 4:+65894728 MsG0480021912.01.T01:CDS
TGGAACAAAGCTAAAGAGAG+TGG 0.660771 4:+65894883 MsG0480021912.01.T01:CDS
GTTGGGTCCATGTGTCATTG+CGG 0.690123 4:+65895497 MsG0480021912.01.T01:CDS
AATATTTACACTAACCTGAG+AGG 0.693145 4:-65894914 None:intergenic
AGAAATTTAATACACTGACA+GGG 0.717165 4:-65895712 None:intergenic
GGTACCAGGCAAAAGAACCA+GGG 0.724550 4:-65895287 None:intergenic
AGTAAGAGTAAGCGACGCGG+CGG 0.748667 4:-65894830 None:intergenic
ACCAGTAAGAGTAAGCGACG+CGG 0.763238 4:-65894833 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATGAAATATTAACCAAAAA+AGG + Chr4:65895175-65895194 MsG0480021912.01.T01:intron 15.0%
!!! ACAAAATAAGCTTATTTTTT+AGG + Chr4:65895070-65895089 MsG0480021912.01.T01:intron 15.0%
!! ATATTGTAAGTATCTCTATT+AGG + Chr4:65894971-65894990 MsG0480021912.01.T01:intron 20.0%
!! TATTGTAAGTATCTCTATTA+GGG + Chr4:65894972-65894991 MsG0480021912.01.T01:intron 20.0%
! AGAAATTTAATACACTGACA+GGG - Chr4:65895715-65895734 None:intergenic 25.0%
! TATATTGTTGTGTTATCTAG+TGG + Chr4:65895133-65895152 MsG0480021912.01.T01:intron 25.0%
! TTACTAAACCAAATTGTGTT+GGG + Chr4:65895480-65895499 MsG0480021912.01.T01:CDS 25.0%
! TTTACTAAACCAAATTGTGT+TGG + Chr4:65895479-65895498 MsG0480021912.01.T01:CDS 25.0%
! TTTGTACCATAAAGTAAAGT+GGG - Chr4:65895597-65895616 None:intergenic 25.0%
!! GTTTAAATTATAGAAGCATG+AGG + Chr4:65895393-65895412 MsG0480021912.01.T01:intron 25.0%
!! TAACCAAAAAAGGTTTGTTT+AGG + Chr4:65895185-65895204 MsG0480021912.01.T01:intron 25.0%
!! TTATCTAGTGGTGAATATTT+TGG + Chr4:65895145-65895164 MsG0480021912.01.T01:intron 25.0%
!!! TTTTTTATTCTTTCGTTGAC+AGG + Chr4:65895455-65895474 MsG0480021912.01.T01:intron 25.0%
AACAGACAAATTACACAGAA+AGG - Chr4:65895673-65895692 None:intergenic 30.0%
AATATTTACACTAACCTGAG+AGG - Chr4:65894917-65894936 None:intergenic 30.0%
AGCATACTACCTTTAACATT+AGG - Chr4:65895353-65895372 None:intergenic 30.0%
AGTAAGTCACAATAACACTT+AGG - Chr4:65895628-65895647 None:intergenic 30.0%
CAGAAATTTAATACACTGAC+AGG - Chr4:65895716-65895735 None:intergenic 30.0%
CTGTCAGTGTATTAAATTTC+TGG + Chr4:65895714-65895733 MsG0480021912.01.T01:CDS 30.0%
CTTCATCTATAAATGATGTC+TGG + Chr4:65895371-65895390 MsG0480021912.01.T01:intron 30.0%
GTTTGTACCATAAAGTAAAG+TGG - Chr4:65895598-65895617 None:intergenic 30.0%
TCTTTGCATGGAACAATTTA+TGG + Chr4:65895523-65895542 MsG0480021912.01.T01:CDS 30.0%
! GCATCTCTTTTGTATTTTTC+CGG - Chr4:65895570-65895589 None:intergenic 30.0%
!!! CATCCTAAACAAACCTTTTT+TGG - Chr4:65895191-65895210 None:intergenic 30.0%
ACAATAACACTTAGGCAATG+AGG - Chr4:65895620-65895639 None:intergenic 35.0%
CGAGGCAAAGTAGTATATTA+AGG + Chr4:65895042-65895061 MsG0480021912.01.T01:intron 35.0%
CTACCTTTAACATTAGGTTC+TGG - Chr4:65895347-65895366 None:intergenic 35.0%
TGTCCAGAACCTAATGTTAA+AGG + Chr4:65895341-65895360 MsG0480021912.01.T01:CDS 35.0%
! TCCTATGGATTCCTTTTCTA+TGG + Chr4:65895264-65895283 MsG0480021912.01.T01:CDS 35.0%
! TCTGTGTAATTTGTCTGTTC+AGG + Chr4:65895674-65895693 MsG0480021912.01.T01:intron 35.0%
!! AACATTAGGTTCTGGACATT+TGG - Chr4:65895339-65895358 None:intergenic 35.0%
!!! GTGGTGAATATTTTGGAGTT+TGG + Chr4:65895152-65895171 MsG0480021912.01.T01:intron 35.0%
!!! TCTGTTCAGGTTTTAGATTC+TGG + Chr4:65895687-65895706 MsG0480021912.01.T01:intron 35.0%
AAGATAACCGCAATGACACA+TGG - Chr4:65895507-65895526 None:intergenic 40.0%
ACAAAAGCTTTCAGAGCTTC+CGG + Chr4:65895548-65895567 MsG0480021912.01.T01:CDS 40.0%
GCCATAGAAAAGGAATCCAT+AGG - Chr4:65895268-65895287 None:intergenic 40.0%
GCTCTTCCCACTTTACTTTA+TGG + Chr4:65895588-65895607 MsG0480021912.01.T01:CDS 40.0%
TCATTGCGGTTATCTTTGCA+TGG + Chr4:65895511-65895530 MsG0480021912.01.T01:CDS 40.0%
TGGAACAAAGCTAAAGAGAG+TGG + Chr4:65894883-65894902 MsG0480021912.01.T01:CDS 40.0%
! ATAGAAGCATGAGGCAGTTA+AGG + Chr4:65895402-65895421 MsG0480021912.01.T01:intron 40.0%
!! GATTTGGGAGTGGATTTTTC+GGG + Chr4:65894692-65894711 MsG0480021912.01.T01:CDS 40.0%
!! GGATTTGGGAGTGGATTTTT+CGG + Chr4:65894691-65894710 MsG0480021912.01.T01:CDS 40.0%
!! TCTCTTTAGCTTTGTTCCAC+CGG - Chr4:65894882-65894901 None:intergenic 40.0%
!!! ATTTTTCGGGTTCTGGAAGT+GGG + Chr4:65894705-65894724 MsG0480021912.01.T01:CDS 40.0%
AAACTGATAACCACCTCCGA+CGG - Chr4:65894791-65894810 None:intergenic 45.0%
AAGAACCAGGGCCATAGAAA+AGG - Chr4:65895278-65895297 None:intergenic 45.0%
CACATGGACCCAACACAATT+TGG - Chr4:65895491-65895510 None:intergenic 45.0%
TTAGGGCTCTGTGAATCTTG+AGG + Chr4:65894989-65895008 MsG0480021912.01.T01:intron 45.0%
TTATCAGTTTCCGCTGAAGC+AGG + Chr4:65894801-65894820 MsG0480021912.01.T01:CDS 45.0%
!! AGGTTCTGGACATTTGGCTT+TGG - Chr4:65895333-65895352 None:intergenic 45.0%
!! CATTTGGCTTTGGGAGACAA+TGG - Chr4:65895323-65895342 None:intergenic 45.0%
!! GGTTCTGGACATTTGGCTTT+GGG - Chr4:65895332-65895351 None:intergenic 45.0%
!!! GATTTTTCGGGTTCTGGAAG+TGG + Chr4:65894704-65894723 MsG0480021912.01.T01:CDS 45.0%
ACCAGTAAGAGTAAGCGACG+CGG - Chr4:65894836-65894855 None:intergenic 50.0%
ATGGTCAAGCAACTGGTACC+AGG - Chr4:65895304-65895323 None:intergenic 50.0%
CTTGAGGTCTGTCATGACTC+TGG + Chr4:65895005-65895024 MsG0480021912.01.T01:intron 50.0%
GAGTGGTGAAAATGCCTCTC+AGG + Chr4:65894900-65894919 MsG0480021912.01.T01:CDS 50.0%
GCTCTGCGAATGACTTCCTA+TGG + Chr4:65895249-65895268 MsG0480021912.01.T01:CDS 50.0%
GGAGACAATGGTCAAGCAAC+TGG - Chr4:65895311-65895330 None:intergenic 50.0%
GGTACCAGGCAAAAGAACCA+GGG - Chr4:65895290-65895309 None:intergenic 50.0%
TGGTACCAGGCAAAAGAACC+AGG - Chr4:65895291-65895310 None:intergenic 50.0%
! GGATTCCTTTTCTATGGCCC+TGG + Chr4:65895270-65895289 MsG0480021912.01.T01:CDS 50.0%
! GTTGGGTCCATGTGTCATTG+CGG + Chr4:65895497-65895516 MsG0480021912.01.T01:CDS 50.0%
!! CGTCGTTTTCGGTCCAATTC+GGG + Chr4:65894751-65894770 MsG0480021912.01.T01:CDS 50.0%
!! GCGTCGTTTTCGGTCCAATT+CGG + Chr4:65894750-65894769 MsG0480021912.01.T01:CDS 50.0%
!!! GGAGTGGATTTTTCGGGTTC+TGG + Chr4:65894698-65894717 MsG0480021912.01.T01:CDS 50.0%
AGTAAGAGTAAGCGACGCGG+CGG - Chr4:65894833-65894852 None:intergenic 55.0%
CGATTGCTCAGCTCAGTAGC+CGG + Chr4:65894860-65894879 MsG0480021912.01.T01:CDS 55.0%
GACGCGATTGGATTTGGGAG+TGG + Chr4:65894682-65894701 MsG0480021912.01.T01:CDS 55.0%
GGAACCAGCTGAACCCGAAT+TGG - Chr4:65894767-65894786 None:intergenic 55.0%
! CTGGTGCGTTTTCGTGTTCG+AGG + Chr4:65895024-65895043 MsG0480021912.01.T01:intron 55.0%
!! ATCCACGACGGCGTCGTTTT+CGG + Chr4:65894740-65894759 MsG0480021912.01.T01:CDS 55.0%
!! ATGGCCCTGGTTCTTTTGCC+TGG + Chr4:65895283-65895302 MsG0480021912.01.T01:CDS 55.0%
AAACGACGCCGTCGTGGATC+CGG - Chr4:65894739-65894758 None:intergenic 60.0%
ACCCGAAACCGGATCCACGA+CGG + Chr4:65894728-65894747 MsG0480021912.01.T01:CDS 60.0%
CTGATAACCACCTCCGACGG+CGG - Chr4:65894788-65894807 None:intergenic 60.0%
CTGGAAGTGGGACCCGAAAC+CGG + Chr4:65894717-65894736 MsG0480021912.01.T01:CDS 60.0%
GCCGCGTCGCTTACTCTTAC+TGG + Chr4:65894832-65894851 MsG0480021912.01.T01:CDS 60.0%
GCGGTTAACGCCTGCTTCAG+CGG - Chr4:65894814-65894833 None:intergenic 60.0%
TTGCTCAGCTCAGTAGCCGG+TGG + Chr4:65894863-65894882 MsG0480021912.01.T01:CDS 60.0%
! CGGTCCAATTCGGGTTCAGC+TGG + Chr4:65894760-65894779 MsG0480021912.01.T01:CDS 60.0%
CGCCGTCGTGGATCCGGTTT+CGG - Chr4:65894733-65894752 None:intergenic 65.0%
GACCGAAAACGACGCCGTCG+TGG - Chr4:65894745-65894764 None:intergenic 65.0%
GCCGTCGTGGATCCGGTTTC+GGG - Chr4:65894732-65894751 None:intergenic 65.0%
! GGTTCAGCTGGTTCCGCCGT+CGG + Chr4:65894772-65894791 MsG0480021912.01.T01:CDS 65.0%
! TCAGCTGGTTCCGCCGTCGG+AGG + Chr4:65894775-65894794 MsG0480021912.01.T01:CDS 70.0%
! GCTGGTTCCGCCGTCGGAGG+TGG + Chr4:65894778-65894797 MsG0480021912.01.T01:CDS 75.0%
Chromosome Type Strat End Strand Name
Chr4 gene 65894679 65895757 65894679 ID=MsG0480021912.01;Name=MsG0480021912.01
Chr4 mRNA 65894679 65895757 65894679 ID=MsG0480021912.01.T01;Parent=MsG0480021912.01;Name=MsG0480021912.01.T01;_AED=0.46;_eAED=0.49;_QI=0|0.66|0.5|1|1|1|4|0|215
Chr4 exon 65894679 65894975 65894679 ID=MsG0480021912.01.T01:exon:10321;Parent=MsG0480021912.01.T01
Chr4 exon 65895207 65895362 65895207 ID=MsG0480021912.01.T01:exon:10322;Parent=MsG0480021912.01.T01
Chr4 exon 65895477 65895609 65895477 ID=MsG0480021912.01.T01:exon:10323;Parent=MsG0480021912.01.T01
Chr4 exon 65895696 65895757 65895696 ID=MsG0480021912.01.T01:exon:10324;Parent=MsG0480021912.01.T01
Chr4 CDS 65894679 65894975 65894679 ID=MsG0480021912.01.T01:cds;Parent=MsG0480021912.01.T01
Chr4 CDS 65895207 65895362 65895207 ID=MsG0480021912.01.T01:cds;Parent=MsG0480021912.01.T01
Chr4 CDS 65895477 65895609 65895477 ID=MsG0480021912.01.T01:cds;Parent=MsG0480021912.01.T01
Chr4 CDS 65895696 65895757 65895696 ID=MsG0480021912.01.T01:cds;Parent=MsG0480021912.01.T01
Gene Sequence

>MsG0480021912.01.T01

ATGGACGCGATTGGATTTGGGAGTGGATTTTTCGGGTTCTGGAAGTGGGACCCGAAACCGGATCCACGACGGCGTCGTTTTCGGTCCAATTCGGGTTCAGCTGGTTCCGCCGTCGGAGGTGGTTATCAGTTTCCGCTGAAGCAGGCGTTAACCGCCGCGTCGCTTACTCTTACTGGTGACACGATTGCTCAGCTCAGTAGCCGGTGGAACAAAGCTAAAGAGAGTGGTGAAAATGCCTCTCAGGTTAGTGTAAATATTGTTCATTCAATTTTCAGTGATAATGTTATGTGTAATATTGATGTATTGTCGAAGCTTCTTTCAGAACACGATTTGCTACGTGCTCTGCGAATGACTTCCTATGGATTCCTTTTCTATGGCCCTGGTTCTTTTGCCTGGTACCAGTTGCTTGACCATTGTCTCCCAAAGCCAAATGTCCAGAACCTAATGTTAAAGGTTTTACTAAACCAAATTGTGTTGGGTCCATGTGTCATTGCGGTTATCTTTGCATGGAACAATTTATGGCAACAAAAGCTTTCAGAGCTTCCGGAAAAATACAAAAGAGATGCTCTTCCCACTTTACTTTATGGTTTTAGATTCTGGATCCCTGTCAGTGTATTAAATTTCTGGTACGCACGTTCATGTCCTTAA

Protein sequence

>MsG0480021912.01.T01

MDAIGFGSGFFGFWKWDPKPDPRRRRFRSNSGSAGSAVGGGYQFPLKQALTAASLTLTGDTIAQLSSRWNKAKESGENASQVSVNIVHSIFSDNVMCNIDVLSKLLSEHDLLRALRMTSYGFLFYGPGSFAWYQLLDHCLPKPNVQNLMLKVLLNQIVLGPCVIAVIFAWNNLWQQKLSELPEKYKRDALPTLLYGFRFWIPVSVLNFWYARSCP*