AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480018112.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480018112.01.T01 MTR_4g005520 86.124 209 14 4 22 230 21 214 6.53e-120 340
MsG0480018112.01.T01 MTR_3g105100 47.368 76 35 3 148 222 120 191 2.26e-13 67.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480018112.01.T01 AT4G27990 63.014 146 46 3 87 226 70 213 1.48e-55 177
MsG0480018112.01.T01 AT3G07430 50.000 188 73 3 55 226 45 227 8.94e-52 167
MsG0480018112.01.T01 AT5G21920 50.000 76 33 3 148 222 133 204 6.62e-14 69.3

Find 70 sgRNAs with CRISPR-Local

Find 80 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAGGTTTAGGTTTGGGTATG+GGG 0.273496 4:-354461 MsG0480018112.01.T01:CDS
GACAACCATTGTCTGCAATT+AGG 0.283838 4:-353957 MsG0480018112.01.T01:CDS
GCAACGATGGGTTTAGGTTT+AGG 0.285410 4:-354474 MsG0480018112.01.T01:CDS
TGAGGGATGATTAGGTTATT+AGG 0.296692 4:+354384 None:intergenic
ACAACCATTGTCTGCAATTA+GGG 0.307081 4:-353956 MsG0480018112.01.T01:CDS
TTAGGTTTAGGTTTGGGTAT+GGG 0.307229 4:-354462 MsG0480018112.01.T01:CDS
ATAAAAGCGCGGTGGCGAAT+AGG 0.322008 4:+354208 None:intergenic
ACAGTGGTGTGTTGTTGGTT+AGG 0.327645 4:-354017 MsG0480018112.01.T01:CDS
ATCCTTATCTAAGTTTGTTT+AGG 0.329465 4:-353924 MsG0480018112.01.T01:CDS
AGGTTTAGGTTTGGGTATGG+GGG 0.355862 4:-354460 MsG0480018112.01.T01:CDS
TAAAAGCGCGGTGGCGAATA+GGG 0.356707 4:+354209 None:intergenic
GCTGCAGCAACGATGGGTTT+AGG 0.363191 4:-354480 MsG0480018112.01.T01:CDS
CAGTGGTGTGTTGTTGGTTA+GGG 0.363509 4:-354016 MsG0480018112.01.T01:CDS
GACGAGATGAAGGTGAGAAA+TGG 0.370719 4:+354421 None:intergenic
ACGAGATGAAGGTGAGAAAT+GGG 0.378393 4:+354422 None:intergenic
TTCGGCGTTGTTTGTGTTGA+GGG 0.382973 4:+354367 None:intergenic
ATGGGTTTAGGTTTAGGTTT+GGG 0.383576 4:-354468 MsG0480018112.01.T01:CDS
TAGCGGCGGGGTTGAAGAAA+TGG 0.403666 4:-354050 MsG0480018112.01.T01:CDS
TTTAGGTTTAGGTTTGGGTA+TGG 0.411658 4:-354463 MsG0480018112.01.T01:CDS
GGATGGGATGGGATCTAAAC+AGG 0.415130 4:+353811 None:intergenic
TATTTACAGTGGTGTGTTGT+TGG 0.416695 4:-354022 MsG0480018112.01.T01:CDS
GACGGTGAACACGCCTTTGA+CGG 0.419073 4:-354076 MsG0480018112.01.T01:CDS
AACAACAACGTTCTTCTCTC+TGG 0.424828 4:-354252 MsG0480018112.01.T01:CDS
GTTTGTGTTGAGGGATGATT+AGG 0.430112 4:+354376 None:intergenic
GGGTTTGAGAGGTGCGGCGG+AGG 0.435477 4:+354302 None:intergenic
GAGAGGTGCGGCGGAGGTGA+GGG 0.441336 4:+354308 None:intergenic
TGAGAGGTGCGGCGGAGGTG+AGG 0.450777 4:+354307 None:intergenic
GATGGGTTTAGGTTTAGGTT+TGG 0.452940 4:-354469 MsG0480018112.01.T01:CDS
TGTCTTTCCCATGGAATGTT+GGG 0.454889 4:+353976 None:intergenic
CCTTTGACGGTTGTAGCGGC+GGG 0.464494 4:-354063 MsG0480018112.01.T01:CDS
GGATGATTAGGTTATTAGGT+TGG 0.464532 4:+354388 None:intergenic
AAAGAGAGAAGACGAGATGA+AGG 0.465410 4:+354411 None:intergenic
GGTTTAGGTTTGGGTATGGG+GGG 0.472187 4:-354459 MsG0480018112.01.T01:CDS
AAATAGAACAAGTGGTGGTT+CGG 0.476134 4:+354349 None:intergenic
GCAATTGATACACAAAGGTC+CGG 0.478361 4:+354153 None:intergenic
AGGTGCGGCGGAGGTGAGGG+TGG 0.490761 4:+354311 None:intergenic
AGTCTGAGAAATGGCTTCAA+TGG 0.509517 4:-354505 None:intergenic
GTTGGTTTCCCAACATTCCA+TGG 0.512936 4:-353984 MsG0480018112.01.T01:CDS
TTCCTAAACAAACTTAGATA+AGG 0.515631 4:+353922 None:intergenic
GACAATGGTTGTCTTTCCCA+TGG 0.515980 4:+353967 None:intergenic
GCCTTTGACGGTTGTAGCGG+CGG 0.524524 4:-354064 MsG0480018112.01.T01:CDS
GTTCGGCGTTGTTTGTGTTG+AGG 0.535714 4:+354366 None:intergenic
CACGCCTTTGACGGTTGTAG+CGG 0.544142 4:-354067 MsG0480018112.01.T01:CDS
AATGGCAGCTGCAGCAACGA+TGG 0.546477 4:-354487 MsG0480018112.01.T01:CDS
TTGGTTTCCCAACATTCCAT+GGG 0.548737 4:-353983 MsG0480018112.01.T01:CDS
CTGTCATCGTTGATGAGGAG+GGG 0.549818 4:+354282 None:intergenic
ATGGCAGCTGCAGCAACGAT+GGG 0.553103 4:-354486 MsG0480018112.01.T01:CDS
CCCGCCGCTACAACCGTCAA+AGG 0.556973 4:+354063 None:intergenic
CGTCAACATTCTTCCACCGC+CGG 0.565567 4:-354172 MsG0480018112.01.T01:CDS
GAGGGGTTTGAGAGGTGCGG+CGG 0.571605 4:+354299 None:intergenic
TGCTGTCATCGTTGATGAGG+AGG 0.572190 4:+354280 None:intergenic
TTGTCTTTCCCATGGAATGT+TGG 0.574451 4:+353975 None:intergenic
AAAACAGCAAAAGCAAGAAG+AGG 0.574512 4:+353862 None:intergenic
GCTGTCATCGTTGATGAGGA+GGG 0.577378 4:+354281 None:intergenic
CTTTGACGGTTGTAGCGGCG+GGG 0.593981 4:-354062 MsG0480018112.01.T01:CDS
GATACACAAAGGTCCGGCGG+TGG 0.598565 4:+354159 None:intergenic
TAGGGTTGTAACGGTTCGAG+TGG 0.613197 4:+354227 None:intergenic
GGCGGGGTTGAAGAAATGGT+TGG 0.623671 4:-354046 MsG0480018112.01.T01:CDS
TGTTGCTGTCATCGTTGATG+AGG 0.630006 4:+354277 None:intergenic
GATTGAAATAGAACAAGTGG+TGG 0.631087 4:+354344 None:intergenic
GTTGATTGAAATAGAACAAG+TGG 0.635554 4:+354341 None:intergenic
TTGATGAGGAGGGGTTTGAG+AGG 0.635892 4:+354291 None:intergenic
AAATGGTTGGATATTTACAG+TGG 0.642279 4:-354033 MsG0480018112.01.T01:CDS
GAGGAGGGGTTTGAGAGGTG+CGG 0.643481 4:+354296 None:intergenic
GGTGGCGAATAGGGTTGTAA+CGG 0.659977 4:+354218 None:intergenic
AGATCCCTAATTGCAGACAA+TGG 0.662621 4:+353952 None:intergenic
TGCTTTGACACATAAAAGCG+CGG 0.687821 4:+354197 None:intergenic
ATTGATACACAAAGGTCCGG+CGG 0.699334 4:+354156 None:intergenic
GGATCTAAACAGGAACAGTG+AGG 0.722011 4:+353821 None:intergenic
TTTGACACATAAAAGCGCGG+TGG 0.754274 4:+354200 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! CTTATATCATGAAAAAGACT+AGG - Chr4:354216-354235 MsG0480018112.01.T01:CDS 25.0%
! TTCCTAAACAAACTTAGATA+AGG + Chr4:354401-354420 None:intergenic 25.0%
!! ATCCTTATCTAAGTTTGTTT+AGG - Chr4:354396-354415 MsG0480018112.01.T01:CDS 25.0%
!! ATTTTGCAATTGATACACAA+AGG + Chr4:354175-354194 None:intergenic 25.0%
!!! ATATCAAGAGTATCAAAAAC+AGG + Chr4:354434-354453 None:intergenic 25.0%
AAATGGTTGGATATTTACAG+TGG - Chr4:354287-354306 MsG0480018112.01.T01:CDS 30.0%
GTTGATTGAAATAGAACAAG+TGG + Chr4:353982-354001 None:intergenic 30.0%
TATCATGAAAAAGACTAGGA+CGG - Chr4:354220-354239 MsG0480018112.01.T01:CDS 30.0%
AAAACAGCAAAAGCAAGAAG+AGG + Chr4:354461-354480 None:intergenic 35.0%
AAATAGAACAAGTGGTGGTT+CGG + Chr4:353974-353993 None:intergenic 35.0%
ACAACCATTGTCTGCAATTA+GGG - Chr4:354364-354383 MsG0480018112.01.T01:CDS 35.0%
ATCATGAAAAAGACTAGGAC+GGG - Chr4:354221-354240 MsG0480018112.01.T01:CDS 35.0%
GATTGAAATAGAACAAGTGG+TGG + Chr4:353979-353998 None:intergenic 35.0%
GGATGATTAGGTTATTAGGT+TGG + Chr4:353935-353954 None:intergenic 35.0%
TATTTACAGTGGTGTGTTGT+TGG - Chr4:354298-354317 MsG0480018112.01.T01:CDS 35.0%
TGAGGGATGATTAGGTTATT+AGG + Chr4:353939-353958 None:intergenic 35.0%
! ATGGGTTTAGGTTTAGGTTT+GGG - Chr4:353852-353871 MsG0480018112.01.T01:CDS 35.0%
! TTAGGTTTAGGTTTGGGTAT+GGG - Chr4:353858-353877 MsG0480018112.01.T01:CDS 35.0%
! TTTAGGTTTAGGTTTGGGTA+TGG - Chr4:353857-353876 MsG0480018112.01.T01:CDS 35.0%
!! TCAAGAGTATCAAAAACAGG+TGG + Chr4:354431-354450 None:intergenic 35.0%
!!! CTTCTTGCTTTTGCTGTTTT+GGG - Chr4:354461-354480 MsG0480018112.01.T01:CDS 35.0%
!!! TCTTCTTGCTTTTGCTGTTT+TGG - Chr4:354460-354479 MsG0480018112.01.T01:CDS 35.0%
AAAGAGAGAAGACGAGATGA+AGG + Chr4:353912-353931 None:intergenic 40.0%
AACAACAACGTTCTTCTCTC+TGG - Chr4:354068-354087 MsG0480018112.01.T01:CDS 40.0%
ACGAGATGAAGGTGAGAAAT+GGG + Chr4:353901-353920 None:intergenic 40.0%
AGATCCCTAATTGCAGACAA+TGG + Chr4:354371-354390 None:intergenic 40.0%
GACAACCATTGTCTGCAATT+AGG - Chr4:354363-354382 MsG0480018112.01.T01:CDS 40.0%
GCAATTGATACACAAAGGTC+CGG + Chr4:354170-354189 None:intergenic 40.0%
GTTTGTGTTGAGGGATGATT+AGG + Chr4:353947-353966 None:intergenic 40.0%
TCATGAAAAAGACTAGGACG+GGG - Chr4:354222-354241 MsG0480018112.01.T01:CDS 40.0%
TGCTTTGACACATAAAAGCG+CGG + Chr4:354126-354145 None:intergenic 40.0%
TGTCTTTCCCATGGAATGTT+GGG + Chr4:354347-354366 None:intergenic 40.0%
TTGGTTTCCCAACATTCCAT+GGG - Chr4:354337-354356 MsG0480018112.01.T01:CDS 40.0%
TTGTCTTTCCCATGGAATGT+TGG + Chr4:354348-354367 None:intergenic 40.0%
! GATGGGTTTAGGTTTAGGTT+TGG - Chr4:353851-353870 MsG0480018112.01.T01:CDS 40.0%
! TAGGTTTAGGTTTGGGTATG+GGG - Chr4:353859-353878 MsG0480018112.01.T01:CDS 40.0%
!!! TGGTTAGGGTTTTGTTGAGT+TGG - Chr4:354318-354337 MsG0480018112.01.T01:CDS 40.0%
ATTGATACACAAAGGTCCGG+CGG + Chr4:354167-354186 None:intergenic 45.0%
GACAATGGTTGTCTTTCCCA+TGG + Chr4:354356-354375 None:intergenic 45.0%
GACGAGATGAAGGTGAGAAA+TGG + Chr4:353902-353921 None:intergenic 45.0%
TGTTGCTGTCATCGTTGATG+AGG + Chr4:354046-354065 None:intergenic 45.0%
TTCGGCGTTGTTTGTGTTGA+GGG + Chr4:353956-353975 None:intergenic 45.0%
! ACAGTGGTGTGTTGTTGGTT+AGG - Chr4:354303-354322 MsG0480018112.01.T01:CDS 45.0%
! AGGTTTAGGTTTGGGTATGG+GGG - Chr4:353860-353879 MsG0480018112.01.T01:CDS 45.0%
! CAGTGGTGTGTTGTTGGTTA+GGG - Chr4:354304-354323 MsG0480018112.01.T01:CDS 45.0%
! GCAACGATGGGTTTAGGTTT+AGG - Chr4:353846-353865 MsG0480018112.01.T01:CDS 45.0%
! GTTGGTTTCCCAACATTCCA+TGG - Chr4:354336-354355 MsG0480018112.01.T01:CDS 45.0%
! TTTGACACATAAAAGCGCGG+TGG + Chr4:354123-354142 None:intergenic 45.0%
GAAAAAGACTAGGACGGGGA+CGG - Chr4:354226-354245 MsG0480018112.01.T01:CDS 50.0%
GGTGGCGAATAGGGTTGTAA+CGG + Chr4:354105-354124 None:intergenic 50.0%
GTTCGGCGTTGTTTGTGTTG+AGG + Chr4:353957-353976 None:intergenic 50.0%
TAGGGTTGTAACGGTTCGAG+TGG + Chr4:354096-354115 None:intergenic 50.0%
TTGATGAGGAGGGGTTTGAG+AGG + Chr4:354032-354051 None:intergenic 50.0%
! ATAAAAGCGCGGTGGCGAAT+AGG + Chr4:354115-354134 None:intergenic 50.0%
! CTGTCATCGTTGATGAGGAG+GGG + Chr4:354041-354060 None:intergenic 50.0%
! GCTGTCATCGTTGATGAGGA+GGG + Chr4:354042-354061 None:intergenic 50.0%
! GGTTTAGGTTTGGGTATGGG+GGG - Chr4:353861-353880 MsG0480018112.01.T01:CDS 50.0%
! TAAAAGCGCGGTGGCGAATA+GGG + Chr4:354114-354133 None:intergenic 50.0%
! TGCTGTCATCGTTGATGAGG+AGG + Chr4:354043-354062 None:intergenic 50.0%
!! GCTGTTTTGGGTACTCTTGC+TGG - Chr4:354473-354492 MsG0480018112.01.T01:CDS 50.0%
AATGGCAGCTGCAGCAACGA+TGG - Chr4:353833-353852 MsG0480018112.01.T01:CDS 55.0%
ATGGCAGCTGCAGCAACGAT+GGG - Chr4:353834-353853 MsG0480018112.01.T01:CDS 55.0%
CACGCCTTTGACGGTTGTAG+CGG - Chr4:354253-354272 MsG0480018112.01.T01:CDS 55.0%
CGTCAACATTCTTCCACCGC+CGG - Chr4:354148-354167 MsG0480018112.01.T01:CDS 55.0%
GACGGTGAACACGCCTTTGA+CGG - Chr4:354244-354263 MsG0480018112.01.T01:CDS 55.0%
GGCGGGGTTGAAGAAATGGT+TGG - Chr4:354274-354293 MsG0480018112.01.T01:CDS 55.0%
TAGCGGCGGGGTTGAAGAAA+TGG - Chr4:354270-354289 MsG0480018112.01.T01:CDS 55.0%
! GCTGCAGCAACGATGGGTTT+AGG - Chr4:353840-353859 MsG0480018112.01.T01:CDS 55.0%
CCTTTGACGGTTGTAGCGGC+GGG - Chr4:354257-354276 MsG0480018112.01.T01:CDS 60.0%
CTTTGACGGTTGTAGCGGCG+GGG - Chr4:354258-354277 MsG0480018112.01.T01:CDS 60.0%
GAGGAGGGGTTTGAGAGGTG+CGG + Chr4:354027-354046 None:intergenic 60.0%
GATACACAAAGGTCCGGCGG+TGG + Chr4:354164-354183 None:intergenic 60.0%
GCCTTTGACGGTTGTAGCGG+CGG - Chr4:354256-354275 MsG0480018112.01.T01:CDS 60.0%
!! CGGAGGTGAGGGTGGTTTTG+TGG + Chr4:354004-354023 None:intergenic 60.0%
CCCGCCGCTACAACCGTCAA+AGG + Chr4:354260-354279 None:intergenic 65.0%
! GAGGGGTTTGAGAGGTGCGG+CGG + Chr4:354024-354043 None:intergenic 65.0%
! GAGAGGTGCGGCGGAGGTGA+GGG + Chr4:354015-354034 None:intergenic 70.0%
! GGGTTTGAGAGGTGCGGCGG+AGG + Chr4:354021-354040 None:intergenic 70.0%
! TGAGAGGTGCGGCGGAGGTG+AGG + Chr4:354016-354035 None:intergenic 70.0%
AGGTGCGGCGGAGGTGAGGG+TGG + Chr4:354012-354031 None:intergenic 75.0%
Chromosome Type Strat End Strand Name
Chr4 gene 353825 354517 353825 ID=MsG0480018112.01;Name=MsG0480018112.01
Chr4 mRNA 353825 354517 353825 ID=MsG0480018112.01.T01;Parent=MsG0480018112.01;Name=MsG0480018112.01.T01;_AED=0.49;_eAED=0.49;_QI=0|-1|0|1|-1|1|1|0|230
Chr4 exon 353825 354517 353825 ID=MsG0480018112.01.T01:exon:357;Parent=MsG0480018112.01.T01
Chr4 CDS 353825 354517 353825 ID=MsG0480018112.01.T01:cds;Parent=MsG0480018112.01.T01
Gene Sequence

>MsG0480018112.01.T01

ATGGCTTCAATGGCAGCTGCAGCAACGATGGGTTTAGGTTTAGGTTTGGGTATGGGGGGTATGACTGTAACTTCCCATTTCTCACCTTCATCTCGTCTTCTCTCTTTCCAACCTAATAACCTAATCATCCCTCAACACAAACAACGCCGAACCACCACTTGTTCTATTTCAATCAACCACAAAACCACCCTCACCTCCGCCGCACCTCTCAAACCCCTCCTCATCAACGATGACAGCAACAACAACAACAACGTTCTTCTCTCTGGTTCCACTCGAACCGTTACAACCCTATTCGCCACCGCGCTTTTATGTGTCAAAGCATTCGTCAACATTCTTCCACCGCCGGACCTTTGTGTATCAATTGCAAAATCATCTTCATCGCTTTGTTTCGCTTATATCATGAAAAAGACTAGGACGGGGACGGTGAACACGCCTTTGACGGTTGTAGCGGCGGGGTTGAAGAAATGGTTGGATATTTACAGTGGTGTGTTGTTGGTTAGGGTTTTGTTGAGTTGGTTTCCCAACATTCCATGGGAAAGACAACCATTGTCTGCAATTAGGGATCTTTGTGATCCTTATCTAAGTTTGTTTAGGAATATTGTTCCACCTGTTTTTGATACTCTTGATATTAGTCCTCTTCTTGCTTTTGCTGTTTTGGGTACTCTTGCTGGTCTCCTCACTGTTCCTGTTTAG

Protein sequence

>MsG0480018112.01.T01

MASMAAAATMGLGLGLGMGGMTVTSHFSPSSRLLSFQPNNLIIPQHKQRRTTTCSISINHKTTLTSAAPLKPLLINDDSNNNNNVLLSGSTRTVTTLFATALLCVKAFVNILPPPDLCVSIAKSSSSLCFAYIMKKTRTGTVNTPLTVVAAGLKKWLDIYSGVLLVRVLLSWFPNIPWERQPLSAIRDLCDPYLSLFRNIVPPVFDTLDISPLLAFAVLGTLAGLLTVPV*