AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180004264.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180004264.01.T01 MTR_2g038250 100.000 45 0 0 149 193 200 244 1.97e-26 101
MsG0180004264.01.T01 MTR_2g038250 82.857 35 6 0 77 111 54 88 2.73e-11 60.8
MsG0180004264.01.T01 MTR_1g022385 100.000 45 0 0 149 193 231 275 3.61e-26 101
MsG0180004264.01.T01 MTR_4g008160 89.362 47 5 0 147 193 197 243 1.02e-24 97.1
MsG0180004264.01.T01 MTR_1g022375 97.143 35 1 0 149 183 122 156 6.77e-18 77.0
MsG0180004264.01.T01 MTR_1g108785 75.676 37 8 1 150 185 23 59 2.53e-12 59.7
MsG0180004264.01.T01 MTR_7g059170 41.176 68 30 1 126 193 189 246 6.73e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180004264.01.T01 AT3G13580 87.234 47 6 0 147 193 198 244 1.23e-24 97.1
MsG0180004264.01.T01 AT3G13580 87.234 47 6 0 147 193 198 244 1.23e-24 97.1
MsG0180004264.01.T01 AT3G13580 87.234 47 6 0 147 193 198 244 1.23e-24 97.1
MsG0180004264.01.T01 AT3G13580 87.234 47 6 0 147 193 198 244 1.23e-24 97.1
MsG0180004264.01.T01 AT3G13580 87.234 47 6 0 147 193 198 244 1.23e-24 97.1
MsG0180004264.01.T01 AT3G13580 87.234 47 6 0 147 193 198 244 1.23e-24 97.1
MsG0180004264.01.T01 AT3G13580 87.234 47 6 0 147 193 198 244 1.23e-24 97.1
MsG0180004264.01.T01 AT3G13580 87.234 47 6 0 147 193 198 244 1.23e-24 97.1
MsG0180004264.01.T01 AT3G13580 87.234 47 6 0 147 193 198 244 1.23e-24 97.1
MsG0180004264.01.T01 AT2G01250 87.234 47 6 0 147 193 196 242 2.43e-24 96.3
MsG0180004264.01.T01 AT2G44120 85.106 47 7 0 147 193 196 242 3.82e-24 95.5
MsG0180004264.01.T01 AT2G44120 85.106 47 7 0 147 193 201 247 4.22e-24 95.5

Find 40 sgRNAs with CRISPR-Local

Find 75 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACATTCTGACTTTGGCAAAT+TGG 0.175298 1:+75742364 None:intergenic
ACTCATTAGAAGGATGAATT+AGG 0.270598 1:-75742147 None:intergenic
ATACTATTGTGCTTGGGATT+TGG 0.274776 1:-75743245 MsG0180004264.01.T01:CDS
TTTCAAGCTCAAAGCTCCTT+TGG 0.284641 1:-75742243 MsG0180004264.01.T01:CDS
TTCAAGCTCAAAGCTCCTTT+GGG 0.329811 1:-75742242 MsG0180004264.01.T01:CDS
CATTCTGACTTTGGCAAATT+GGG 0.334374 1:+75742365 None:intergenic
TCTGAACTGTATGACATAGA+TGG 0.343621 1:-75742418 MsG0180004264.01.T01:CDS
TCAATTCTCTAACACTCTTC+AGG 0.373375 1:+75742562 None:intergenic
AAGGTGGTGATGCTGGTAAC+AGG 0.401808 1:-75742187 MsG0180004264.01.T01:CDS
AACAACTCACATTCTGACTT+TGG 0.407362 1:+75742356 None:intergenic
CTTCGTATACTATTGTGCTT+GGG 0.420026 1:-75743251 MsG0180004264.01.T01:CDS
ACATCAATGAACTCATTAGA+AGG 0.462677 1:-75742157 MsG0180004264.01.T01:CDS
GCTTCGTATACTATTGTGCT+TGG 0.463624 1:-75743252 MsG0180004264.01.T01:CDS
GAAGCGTGAAGCTAAGCTTA+AGG 0.464202 1:-75742602 MsG0180004264.01.T01:CDS
AAGCGTGAAGCTAAGCTTAA+GGG 0.467088 1:-75742601 MsG0180004264.01.T01:CDS
AAGAGAAATCACTATGTTGA+AGG 0.489111 1:-75742206 MsG0180004264.01.T01:CDS
TTATGCATCTACAGGAGGTC+AGG 0.491162 1:-75743042 MsG0180004264.01.T01:intron
AAAGGAGCTTTGAGCTTGAA+AGG 0.504831 1:+75742245 None:intergenic
GAGAGGCAAACAACTTCCTA+TGG 0.504947 1:-75742268 MsG0180004264.01.T01:intron
GGAATACGATGATTCGCAAA+AGG 0.507484 1:-75742638 MsG0180004264.01.T01:CDS
CTGAACTGTATGACATAGAT+GGG 0.513878 1:-75742417 MsG0180004264.01.T01:CDS
CTGTGTGATCGAATGAAAGC+AGG 0.514651 1:+75742448 None:intergenic
ATAAGCTAGAGCAGCAGCCA+AGG 0.523738 1:-75743222 MsG0180004264.01.T01:intron
TATGTTGAAGGTGGTGATGC+TGG 0.533299 1:-75742194 MsG0180004264.01.T01:CDS
AGCTGAGAAGACCACATGGT+TGG 0.546599 1:-75742986 MsG0180004264.01.T01:CDS
TTCTTCTTCATGCCACCCAA+AGG 0.554983 1:+75742227 None:intergenic
CTTTGAGCTTGAAAGGCCAT+AGG 0.568033 1:+75742252 None:intergenic
AAGCTCAAAGCTCCTTTGGG+TGG 0.570830 1:-75742239 MsG0180004264.01.T01:CDS
CCACATGGTTGGAAGTAAGT+AGG 0.574686 1:-75742975 MsG0180004264.01.T01:CDS
TGGAAGTAAGTAGGCTACAG+AGG 0.633375 1:-75742966 MsG0180004264.01.T01:CDS
CGTGAAGCTAAGCTTAAGGG+TGG 0.634387 1:-75742598 MsG0180004264.01.T01:CDS
GAGAAAGCTGAGAAAGAACA+TGG 0.636998 1:-75742929 MsG0180004264.01.T01:intron
AGAAATCACTATGTTGAAGG+TGG 0.637998 1:-75742203 MsG0180004264.01.T01:CDS
CATCTACAGGAGGTCAGGAG+AGG 0.638644 1:-75743037 MsG0180004264.01.T01:intron
AGGTCAGGAGAGGCTTACAG+AGG 0.641963 1:-75743027 MsG0180004264.01.T01:CDS
TGTGTGATCGAATGAAAGCA+GGG 0.648054 1:+75742449 None:intergenic
AGGTGGTGATGCTGGTAACA+GGG 0.651466 1:-75742186 MsG0180004264.01.T01:CDS
AGAAAGCTGAGAAGACCACA+TGG 0.707449 1:-75742990 MsG0180004264.01.T01:CDS
CCTACTTACTTCCAACCATG+TGG 0.731504 1:+75742975 None:intergenic
TGGTGATGCTGGTAACAGGG+AGG 0.745630 1:-75742183 MsG0180004264.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AATGTTTTAGAATTTTAGAA+TGG - Chr1:75742788-75742807 MsG0180004264.01.T01:intron 15.0%
!!! ATATTTAATTTTCTTTCATG+TGG - Chr1:75742303-75742322 MsG0180004264.01.T01:intron 15.0%
!!! AGTTTGAATTAACTCAATTT+TGG - Chr1:75742262-75742281 MsG0180004264.01.T01:CDS 20.0%
!!! TTCTTTCTTTGACTTATATA+TGG - Chr1:75742640-75742659 MsG0180004264.01.T01:CDS 20.0%
!!! TTTAGAATTTTAGAATGGTA+AGG - Chr1:75742793-75742812 MsG0180004264.01.T01:intron 20.0%
! ACTATCATATAATAGTGACA+GGG - Chr1:75742386-75742405 MsG0180004264.01.T01:CDS 25.0%
! CTATCATATTTGTTCTTGTA+GGG - Chr1:75742674-75742693 MsG0180004264.01.T01:intron 25.0%
! GTTTATCCAATTAATAGTGA+GGG - Chr1:75742745-75742764 MsG0180004264.01.T01:intron 25.0%
! TGTTTATCCAATTAATAGTG+AGG - Chr1:75742744-75742763 MsG0180004264.01.T01:intron 25.0%
! TTCAAACTTAAATACAACCT+TGG + Chr1:75742250-75742269 None:intergenic 25.0%
!! ATAATTTAAAGTACGTACTG+TGG - Chr1:75742704-75742723 MsG0180004264.01.T01:intron 25.0%
!! TAATTTAAAGTACGTACTGT+GGG - Chr1:75742705-75742724 MsG0180004264.01.T01:intron 25.0%
!! TTAATTTTCTTTCATGTGGA+AGG - Chr1:75742307-75742326 MsG0180004264.01.T01:intron 25.0%
AAGAGAAATCACTATGTTGA+AGG - Chr1:75743246-75743265 MsG0180004264.01.T01:CDS 30.0%
ACATCAATGAACTCATTAGA+AGG - Chr1:75743295-75743314 MsG0180004264.01.T01:CDS 30.0%
AGATAACTCTATCATTGAAC+AGG - Chr1:75742962-75742981 MsG0180004264.01.T01:CDS 30.0%
AGTCAAAGAAAGAATCTCAT+TGG + Chr1:75742634-75742653 None:intergenic 30.0%
CACTATCATATAATAGTGAC+AGG - Chr1:75742385-75742404 MsG0180004264.01.T01:CDS 30.0%
GCTATCATATTTGTTCTTGT+AGG - Chr1:75742673-75742692 MsG0180004264.01.T01:intron 30.0%
AACAACTCACATTCTGACTT+TGG + Chr1:75743099-75743118 None:intergenic 35.0%
ACATTCTGACTTTGGCAAAT+TGG + Chr1:75743091-75743110 None:intergenic 35.0%
AGAAATCACTATGTTGAAGG+TGG - Chr1:75743249-75743268 MsG0180004264.01.T01:CDS 35.0%
ATACATGCTAGCATTCTAGT+AGG - Chr1:75742334-75742353 MsG0180004264.01.T01:intron 35.0%
ATACTATTGTGCTTGGGATT+TGG - Chr1:75742207-75742226 MsG0180004264.01.T01:CDS 35.0%
ATCCAATTAATAGTGAGGGA+TGG - Chr1:75742749-75742768 MsG0180004264.01.T01:intron 35.0%
CATTCTGACTTTGGCAAATT+GGG + Chr1:75743090-75743109 None:intergenic 35.0%
CTGAACTGTATGACATAGAT+GGG - Chr1:75743035-75743054 MsG0180004264.01.T01:intron 35.0%
CTTCGTATACTATTGTGCTT+GGG - Chr1:75742201-75742220 MsG0180004264.01.T01:CDS 35.0%
CTTTGTCTATTCATGACTGT+TGG - Chr1:75743150-75743169 MsG0180004264.01.T01:intron 35.0%
GTGATAACTACATCCAATGA+GGG + Chr1:75742607-75742626 None:intergenic 35.0%
TACCATCCCTCACTATTAAT+TGG + Chr1:75742754-75742773 None:intergenic 35.0%
TCAATTCTCTAACACTCTTC+AGG + Chr1:75742893-75742912 None:intergenic 35.0%
TCTGAACTGTATGACATAGA+TGG - Chr1:75743034-75743053 MsG0180004264.01.T01:intron 35.0%
TGTGATAACTACATCCAATG+AGG + Chr1:75742608-75742627 None:intergenic 35.0%
!!! CTTTGAAACATCCTTTTCCA+GGG - Chr1:75742578-75742597 MsG0180004264.01.T01:CDS 35.0%
!!! TCTTTGAAACATCCTTTTCC+AGG - Chr1:75742577-75742596 MsG0180004264.01.T01:CDS 35.0%
AAGCGTGAAGCTAAGCTTAA+GGG - Chr1:75742851-75742870 MsG0180004264.01.T01:intron 40.0%
AAGCTGAGAAAGAACATGGT+TGG - Chr1:75742527-75742546 MsG0180004264.01.T01:intron 40.0%
AGAGAATTGATCTACAAGCG+CGG - Chr1:75742903-75742922 MsG0180004264.01.T01:intron 40.0%
GAGAAAGCTGAGAAAGAACA+TGG - Chr1:75742523-75742542 MsG0180004264.01.T01:intron 40.0%
GCTTCGTATACTATTGTGCT+TGG - Chr1:75742200-75742219 MsG0180004264.01.T01:CDS 40.0%
GGAATACGATGATTCGCAAA+AGG - Chr1:75742814-75742833 MsG0180004264.01.T01:intron 40.0%
TGTGTGATCGAATGAAAGCA+GGG + Chr1:75743006-75743025 None:intergenic 40.0%
TTCAAGCTCAAAGCTCCTTT+GGG - Chr1:75743210-75743229 MsG0180004264.01.T01:intron 40.0%
TTTCAAGCTCAAAGCTCCTT+TGG - Chr1:75743209-75743228 MsG0180004264.01.T01:intron 40.0%
!! AAAGGAGCTTTGAGCTTGAA+AGG + Chr1:75743210-75743229 None:intergenic 40.0%
AATGAGGGATTCCCTGGAAA+AGG + Chr1:75742592-75742611 None:intergenic 45.0%
AGAAAGCTGAGAAGACCACA+TGG - Chr1:75742462-75742481 MsG0180004264.01.T01:CDS 45.0%
AGGGTTTATGCATCTACAGG+AGG - Chr1:75742405-75742424 MsG0180004264.01.T01:CDS 45.0%
CCACATGGTTGGAAGTAAGT+AGG - Chr1:75742477-75742496 MsG0180004264.01.T01:intron 45.0%
CCTACTTACTTCCAACCATG+TGG + Chr1:75742480-75742499 None:intergenic 45.0%
CTGTGTGATCGAATGAAAGC+AGG + Chr1:75743007-75743026 None:intergenic 45.0%
CTTTGAGCTTGAAAGGCCAT+AGG + Chr1:75743203-75743222 None:intergenic 45.0%
GAAGCGTGAAGCTAAGCTTA+AGG - Chr1:75742850-75742869 MsG0180004264.01.T01:intron 45.0%
GACAGGGTTTATGCATCTAC+AGG - Chr1:75742402-75742421 MsG0180004264.01.T01:CDS 45.0%
GAGAGGCAAACAACTTCCTA+TGG - Chr1:75743184-75743203 MsG0180004264.01.T01:intron 45.0%
TGGAAGTAAGTAGGCTACAG+AGG - Chr1:75742486-75742505 MsG0180004264.01.T01:intron 45.0%
TGTTGGATCTCACTTCAGAG+AGG - Chr1:75743167-75743186 MsG0180004264.01.T01:intron 45.0%
TTATGCATCTACAGGAGGTC+AGG - Chr1:75742410-75742429 MsG0180004264.01.T01:CDS 45.0%
TTCTTCTTCATGCCACCCAA+AGG + Chr1:75743228-75743247 None:intergenic 45.0%
TTGATCTACAAGCGCGGTTA+TGG - Chr1:75742909-75742928 MsG0180004264.01.T01:intron 45.0%
! GCGGTTATGGAAAGGTTGAT+AGG - Chr1:75742922-75742941 MsG0180004264.01.T01:intron 45.0%
! TATGTTGAAGGTGGTGATGC+TGG - Chr1:75743258-75743277 MsG0180004264.01.T01:CDS 45.0%
! TTTTCCAGGGAATCCCTCAT+TGG - Chr1:75742591-75742610 MsG0180004264.01.T01:CDS 45.0%
AAGCTCAAAGCTCCTTTGGG+TGG - Chr1:75743213-75743232 MsG0180004264.01.T01:intron 50.0%
ACATCCAATGAGGGATTCCC+TGG + Chr1:75742598-75742617 None:intergenic 50.0%
AGCTGAGAAGACCACATGGT+TGG - Chr1:75742466-75742485 MsG0180004264.01.T01:CDS 50.0%
ATAAGCTAGAGCAGCAGCCA+AGG - Chr1:75742230-75742249 MsG0180004264.01.T01:CDS 50.0%
CGTGAAGCTAAGCTTAAGGG+TGG - Chr1:75742854-75742873 MsG0180004264.01.T01:intron 50.0%
CTACAAGCGCGGTTATGGAA+AGG - Chr1:75742914-75742933 MsG0180004264.01.T01:intron 50.0%
! AAGGTGGTGATGCTGGTAAC+AGG - Chr1:75743265-75743284 MsG0180004264.01.T01:CDS 50.0%
! AGGTGGTGATGCTGGTAACA+GGG - Chr1:75743266-75743285 MsG0180004264.01.T01:CDS 50.0%
AGGTCAGGAGAGGCTTACAG+AGG - Chr1:75742425-75742444 MsG0180004264.01.T01:CDS 55.0%
CATCTACAGGAGGTCAGGAG+AGG - Chr1:75742415-75742434 MsG0180004264.01.T01:CDS 55.0%
! TGGTGATGCTGGTAACAGGG+AGG - Chr1:75743269-75743288 MsG0180004264.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr1 gene 75742148 75743326 75742148 ID=MsG0180004264.01;Name=MsG0180004264.01
Chr1 mRNA 75742148 75743326 75742148 ID=MsG0180004264.01.T01;Parent=MsG0180004264.01;Name=MsG0180004264.01.T01;_AED=0.44;_eAED=0.56;_QI=0|0|0|0.6|1|1|5|0|193
Chr1 exon 75743223 75743326 75743223 ID=MsG0180004264.01.T01:exon:12528;Parent=MsG0180004264.01.T01
Chr1 exon 75742930 75743050 75742930 ID=MsG0180004264.01.T01:exon:12527;Parent=MsG0180004264.01.T01
Chr1 exon 75742575 75742668 75742575 ID=MsG0180004264.01.T01:exon:12526;Parent=MsG0180004264.01.T01
Chr1 exon 75742366 75742490 75742366 ID=MsG0180004264.01.T01:exon:12525;Parent=MsG0180004264.01.T01
Chr1 exon 75742148 75742285 75742148 ID=MsG0180004264.01.T01:exon:12524;Parent=MsG0180004264.01.T01
Chr1 CDS 75743223 75743326 75743223 ID=MsG0180004264.01.T01:cds;Parent=MsG0180004264.01.T01
Chr1 CDS 75742930 75743050 75742930 ID=MsG0180004264.01.T01:cds;Parent=MsG0180004264.01.T01
Chr1 CDS 75742575 75742668 75742575 ID=MsG0180004264.01.T01:cds;Parent=MsG0180004264.01.T01
Chr1 CDS 75742366 75742490 75742366 ID=MsG0180004264.01.T01:cds;Parent=MsG0180004264.01.T01
Chr1 CDS 75742148 75742285 75742148 ID=MsG0180004264.01.T01:cds;Parent=MsG0180004264.01.T01
Gene Sequence

>MsG0180004264.01.T01

ATGCTTAATGATCGTGTTCGCACTTGTAGAGTCTTAAAACATCGCAGAATCAGCTTCGTATACTATTGTGCTTGGGATTTGGATAAGCTAGAGCAGCAGCCAAGGAGGTCAGGAGAGGCTTACAGAGGTTTTGCATCTACAGAGAAAGCTGAGAAGACCACATGGTTGGAAGTAAGTAGGCTACAGAGGTTTTTGCATCTACAGAGAAAGCTGAGAAAGAACATGAATGGTAAGGAATACGATGATTCGCAAAAGGAGTTGATTGCGTTGAAGCGTGAAGCTAAGCTTAAGGGTGGATTTTATGTTGATCCTGAAGAGTGTATGTCTTTGATTAGTATCCCTGCTTTCATTCGATCACACAGTTGTCAATCTGAACTGTATGACATAGATGGGATCTCGCTTCATTCTGACTCTGTACTTTACCCAATTTGCCAAAGTCAGAATGCAAACAACTTCCTATGGCCTTTCAAGCTCAAAGCTCCTTTGGGTGGCATGAAGAAGAAGAGAAATCACTATGTTGAAGGTGGTGATGCTGGTAACAGGGAGGATTACATCAATGAACTCATTAGAAGGATGAATTAG

Protein sequence

>MsG0180004264.01.T01

MLNDRVRTCRVLKHRRISFVYYCAWDLDKLEQQPRRSGEAYRGFASTEKAEKTTWLEVSRLQRFLHLQRKLRKNMNGKEYDDSQKELIALKREAKLKGGFYVDPEECMSLISIPAFIRSHSCQSELYDIDGISLHSDSVLYPICQSQNANNFLWPFKLKAPLGGMKKKRNHYVEGGDAGNREDYINELIRRMN*