AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580030204.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580030204.01.T01 MTR_5g098940 99.242 132 1 0 13 144 30 161 1.46e-93 268
MsG0580030204.01.T01 MTR_5g087820 78.947 133 28 0 12 144 53 185 3.65e-77 227
MsG0580030204.01.T01 MTR_1g025190 55.357 112 50 0 13 124 30 141 1.05e-40 133
MsG0580030204.01.T01 MTR_7g100010 45.536 112 57 1 16 123 30 141 1.49e-30 107
MsG0580030204.01.T01 MTR_8g102180 45.536 112 57 1 16 123 30 141 1.49e-30 107
MsG0580030204.01.T01 MTR_8g077600 37.037 135 75 2 13 142 30 159 1.90e-24 92.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580030204.01.T01 AT2G17380 90.909 132 12 0 13 144 30 161 7.85e-88 253
MsG0580030204.01.T01 AT4G35410 90.840 131 12 0 13 143 30 160 2.87e-86 249
MsG0580030204.01.T01 AT4G35410 90.000 70 7 0 12 81 29 98 1.85e-43 139
MsG0580030204.01.T01 AT1G47830 53.571 112 52 0 13 124 30 141 2.20e-39 130
MsG0580030204.01.T01 AT2G19790 45.536 112 57 1 16 123 30 141 5.44e-30 106
MsG0580030204.01.T01 AT3G50860 37.984 129 69 2 13 136 30 152 4.67e-23 89.4
MsG0580030204.01.T01 AT3G50860 38.739 111 63 1 13 118 30 140 6.68e-23 88.2

Find 35 sgRNAs with CRISPR-Local

Find 89 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATATAAAGTTGTTTATAAA+AGG 0.214674 5:-108211635 MsG0580030204.01.T01:intron
GAGATTCTTGATCGGTATTT+TGG 0.252220 5:-108211431 MsG0580030204.01.T01:CDS
TTATATGTGTTGCAATTCTA+TGG 0.268517 5:-108210423 MsG0580030204.01.T01:three_prime_UTR
AATTTCATCAAGTATATAAT+AGG 0.297509 5:+108210873 None:intergenic
TCTAATTGCTGGCGAGCTTC+AGG 0.306112 5:-108210851 MsG0580030204.01.T01:CDS
CATTGTCTTTCAGGATTCAT+TGG 0.310542 5:-108210716 MsG0580030204.01.T01:intron
ATCGCACAAGCTACTAAATA+AGG 0.320939 5:-108210652 MsG0580030204.01.T01:exon
CTTGATGAAATTCTAATTGC+TGG 0.336106 5:-108210862 MsG0580030204.01.T01:CDS
GATCTATTTGCTTGAGGATC+AGG 0.339130 5:-108210330 MsG0580030204.01.T01:three_prime_UTR
CAATTTGCAGGTCTGTGAAT+TGG 0.375542 5:-108211301 MsG0580030204.01.T01:intron
TTGAGCAATGGAGAAATGTT+TGG 0.395006 5:-108210550 MsG0580030204.01.T01:three_prime_UTR
CTCTACAAAATTACAGAGCT+TGG 0.403422 5:+108211665 None:intergenic
ATATCCGCTGTTGTAATTGT+TGG 0.443732 5:-108210577 MsG0580030204.01.T01:three_prime_UTR
TGATGATGCTGACAACGAAT+TGG 0.451575 5:-108211483 MsG0580030204.01.T01:CDS
CAGCGGATATCCTTACTTGA+TGG 0.456039 5:+108210590 None:intergenic
CTTGATATTCAACTTCCATA+AGG 0.468058 5:-108211277 MsG0580030204.01.T01:intron
TTGCTGCTATATATTTGTAC+TGG 0.473000 5:-108210613 MsG0580030204.01.T01:three_prime_UTR
GATAATATTACTCAAGGAAC+TGG 0.478446 5:+108210672 None:intergenic
TTTGTACTGGCCATCAAGTA+AGG 0.483903 5:-108210600 MsG0580030204.01.T01:three_prime_UTR
TATAGCAGCAATTGCAACAT+TGG 0.500509 5:+108210625 None:intergenic
TCTACAAAATTACAGAGCTT+GGG 0.509679 5:+108211666 None:intergenic
AGATGTAAATACACATATCA+AGG 0.517714 5:+108211746 None:intergenic
TGCTCGGTTGATAGCTGCAC+AGG 0.540072 5:-108210809 MsG0580030204.01.T01:intron
TGTCTTTCAGGATTCATTGG+TGG 0.541167 5:-108210713 MsG0580030204.01.T01:intron
AATTACAGAGCTTGGGAGCA+CGG 0.567062 5:+108211673 None:intergenic
GAATCACTCCACTGAGCTCA+CGG 0.569834 5:+108211700 None:intergenic
GGTGTTGATCTATTTGCTTG+AGG 0.579282 5:-108210336 MsG0580030204.01.T01:three_prime_UTR
ATGTGTTGCAATTCTATGGA+TGG 0.589205 5:-108210419 MsG0580030204.01.T01:three_prime_UTR
TTGTGCGATAATATTACTCA+AGG 0.602166 5:+108210666 None:intergenic
ATTGGTGGAGACTGCTAAGG+AGG 0.602252 5:-108210698 MsG0580030204.01.T01:CDS
TTCATTGGTGGAGACTGCTA+AGG 0.613718 5:-108210701 MsG0580030204.01.T01:CDS
ATTCAACTTAACAATAAACA+TGG 0.633889 5:+108210489 None:intergenic
AAGGTAATCCGTGAGCTCAG+TGG 0.653418 5:-108211708 MsG0580030204.01.T01:CDS
GCACAAGCTACTAAATAAGG+AGG 0.668635 5:-108210649 MsG0580030204.01.T01:exon
AATGCCAACAATTACAACAG+CGG 0.693532 5:+108210573 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTATTATTATTATTATTAT+TGG - Chr5:108211680-108211699 MsG0580030204.01.T01:CDS 0.0%
!! AATTTCATCAAGTATATAAT+AGG + Chr5:108211173-108211192 None:intergenic 15.0%
!! ATATTATATCCTTAAGAAAA+GGG + Chr5:108210677-108210696 None:intergenic 15.0%
!! GAAATATATTACATTAAACT+TGG + Chr5:108210985-108211004 None:intergenic 15.0%
!! GATATAAAGTTGTTTATAAA+AGG - Chr5:108210408-108210427 MsG0580030204.01.T01:three_prime_UTR 15.0%
!! TATATCCATAATTCAAAATA+AGG - Chr5:108210811-108210830 MsG0580030204.01.T01:CDS 15.0%
!! TATATTATATCCTTAAGAAA+AGG + Chr5:108210678-108210697 None:intergenic 15.0%
!! ATTCAACTTAACAATAAACA+TGG + Chr5:108211557-108211576 None:intergenic 20.0%
!! TATTTCCATAATTCAAAACA+AGG - Chr5:108210999-108211018 MsG0580030204.01.T01:intron 20.0%
!!! ATCTCATATTTTTATTGACA+AGG - Chr5:108210316-108210335 MsG0580030204.01.T01:three_prime_UTR 20.0%
! AAGACAATGTCATACAAATT+TGG + Chr5:108211316-108211335 None:intergenic 25.0%
! ACCATGAAAGGATTATTAAT+AGG + Chr5:108210858-108210877 None:intergenic 25.0%
! CATGATTAAAAACAAAGAAC+AGG + Chr5:108211145-108211164 None:intergenic 25.0%
! GATATATATCGCATTAAACT+TGG + Chr5:108210797-108210816 None:intergenic 25.0%
! GATTATTAATAGGAGTTACA+GGG + Chr5:108210848-108210867 None:intergenic 25.0%
! TATTAATAATCCTTTCATGG+TGG - Chr5:108210857-108210876 MsG0580030204.01.T01:CDS 25.0%
! TCCTATTAATAATCCTTTCA+TGG - Chr5:108210854-108210873 MsG0580030204.01.T01:CDS 25.0%
! TTATATGTGTTGCAATTCTA+TGG - Chr5:108211620-108211639 MsG0580030204.01.T01:intron 25.0%
!! TGAAATGATTCATCATTTTG+TGG - Chr5:108210590-108210609 MsG0580030204.01.T01:three_prime_UTR 25.0%
!!! CTGTTCTTTGTTTTTAATCA+TGG - Chr5:108211143-108211162 MsG0580030204.01.T01:intron 25.0%
!!! TCTTTGTTTTTAATCATGGA+AGG - Chr5:108211147-108211166 MsG0580030204.01.T01:intron 25.0%
ACTAGACCAATAATAATGAC+AGG + Chr5:108211108-108211127 None:intergenic 30.0%
ACTAGACTGAATATAAAGAC+AGG + Chr5:108210920-108210939 None:intergenic 30.0%
AGCAGATATTCATTATACCA+TGG + Chr5:108210506-108210525 None:intergenic 30.0%
CTTGATATTCAACTTCCATA+AGG - Chr5:108210766-108210785 MsG0580030204.01.T01:intron 30.0%
CTTGATGAAATTCTAATTGC+TGG - Chr5:108211181-108211200 MsG0580030204.01.T01:intron 30.0%
GAATATAAAGACAGGTGATA+TGG + Chr5:108210912-108210931 None:intergenic 30.0%
GATAATATTACTCAAGGAAC+TGG + Chr5:108211374-108211393 None:intergenic 30.0%
GGATTATTAATAGGAGTTAC+AGG + Chr5:108210849-108210868 None:intergenic 30.0%
TCTACAAAATTACAGAGCTT+GGG + Chr5:108210380-108210399 None:intergenic 30.0%
TTAAACTTGGACATACCTTA+TGG + Chr5:108210784-108210803 None:intergenic 30.0%
TTGCTGCTATATATTTGTAC+TGG - Chr5:108211430-108211449 MsG0580030204.01.T01:CDS 30.0%
TTGTGCGATAATATTACTCA+AGG + Chr5:108211380-108211399 None:intergenic 30.0%
TTTGTATGACATTGTCTTTC+AGG - Chr5:108211318-108211337 MsG0580030204.01.T01:intron 30.0%
! ATCAATGGTCTTTCTCTTTT+GGG - Chr5:108211258-108211277 MsG0580030204.01.T01:intron 30.0%
! ATTTTGTGGAGATTCTTGAT+CGG - Chr5:108210604-108210623 MsG0580030204.01.T01:three_prime_UTR 30.0%
! TATCAATGGTCTTTCTCTTT+TGG - Chr5:108211257-108211276 MsG0580030204.01.T01:intron 30.0%
!!! GTAGGCCTTATTTTGAATTA+TGG + Chr5:108210819-108210838 None:intergenic 30.0%
AAACAAAGAACAGGTCAGAA+GGG + Chr5:108210948-108210967 None:intergenic 35.0%
AATAATAATGACAGGCGATG+TGG + Chr5:108211100-108211119 None:intergenic 35.0%
AATGCCAACAATTACAACAG+CGG + Chr5:108211473-108211492 None:intergenic 35.0%
ACATCGCCTGTCATTATTAT+TGG - Chr5:108211099-108211118 MsG0580030204.01.T01:intron 35.0%
ATATCCGCTGTTGTAATTGT+TGG - Chr5:108211466-108211485 MsG0580030204.01.T01:CDS 35.0%
ATCGCACAAGCTACTAAATA+AGG - Chr5:108211391-108211410 MsG0580030204.01.T01:intron 35.0%
ATGTGTTGCAATTCTATGGA+TGG - Chr5:108211624-108211643 MsG0580030204.01.T01:intron 35.0%
CATGATCACAAACAAAGAAC+AGG + Chr5:108210957-108210976 None:intergenic 35.0%
CATTGTCTTTCAGGATTCAT+TGG - Chr5:108211327-108211346 MsG0580030204.01.T01:intron 35.0%
CTCTACAAAATTACAGAGCT+TGG + Chr5:108210381-108210400 None:intergenic 35.0%
GCTTGATGTTTAATTGACCA+TGG - Chr5:108210486-108210505 MsG0580030204.01.T01:three_prime_UTR 35.0%
GTGTCACACTAACTTGATAA+TGG - Chr5:108210711-108210730 MsG0580030204.01.T01:intron 35.0%
TATAGCAGCAATTGCAACAT+TGG + Chr5:108211421-108211440 None:intergenic 35.0%
TTGAGCAATGGAGAAATGTT+TGG - Chr5:108211493-108211512 MsG0580030204.01.T01:CDS 35.0%
! AGCTCTGTAATTTTGTAGAG+TGG - Chr5:108210381-108210400 MsG0580030204.01.T01:three_prime_UTR 35.0%
! ATTGTTGGCATTTTGAGCAA+TGG - Chr5:108211481-108211500 MsG0580030204.01.T01:CDS 35.0%
! CTGTTCTTTGTTTGTGATCA+TGG - Chr5:108210955-108210974 MsG0580030204.01.T01:intron 35.0%
! GAGATTCTTGATCGGTATTT+TGG - Chr5:108210612-108210631 MsG0580030204.01.T01:three_prime_UTR 35.0%
! TCTTTGTTTGTGATCATGGA+AGG - Chr5:108210959-108210978 MsG0580030204.01.T01:intron 35.0%
! TGTAATTTTGTAGAGTGGAG+AGG - Chr5:108210386-108210405 MsG0580030204.01.T01:three_prime_UTR 35.0%
! TTGAAGAGTCCCTTTTCTTA+AGG - Chr5:108210665-108210684 MsG0580030204.01.T01:CDS 35.0%
!! CAGCTTTATAGTCTTTTGCA+AGG - Chr5:108210449-108210468 MsG0580030204.01.T01:three_prime_UTR 35.0%
!!! GTAGGCCTTGTTTTGAATTA+TGG + Chr5:108211007-108211026 None:intergenic 35.0%
ATGGTCACTTGTCAATTTGC+AGG - Chr5:108210730-108210749 MsG0580030204.01.T01:intron 40.0%
CAAACAAAGAACAGGTCAGA+AGG + Chr5:108210949-108210968 None:intergenic 40.0%
CAATTTGCAGGTCTGTGAAT+TGG - Chr5:108210742-108210761 MsG0580030204.01.T01:intron 40.0%
CGAGCAAAAAAACTGTTGCT+CGG - Chr5:108211218-108211237 MsG0580030204.01.T01:intron 40.0%
GATCTATTTGCTTGAGGATC+AGG - Chr5:108211713-108211732 MsG0580030204.01.T01:CDS 40.0%
GCACAAGCTACTAAATAAGG+AGG - Chr5:108211394-108211413 MsG0580030204.01.T01:intron 40.0%
GGAGTTACAGGGAAATAAGT+AGG + Chr5:108210837-108210856 None:intergenic 40.0%
GGAGTTACAGGGAATTAAGT+AGG + Chr5:108211025-108211044 None:intergenic 40.0%
GGTGATATGGTCAACAATCA+AGG + Chr5:108210899-108210918 None:intergenic 40.0%
TAATTGAGGCTCATTCAGTG+TGG + Chr5:108211073-108211092 None:intergenic 40.0%
TGTCTTTCAGGATTCATTGG+TGG - Chr5:108211330-108211349 MsG0580030204.01.T01:intron 40.0%
TTGCAAGGCAATCTTCTGTT+TGG - Chr5:108210464-108210483 MsG0580030204.01.T01:three_prime_UTR 40.0%
! TGATGATGCTGACAACGAAT+TGG - Chr5:108210560-108210579 MsG0580030204.01.T01:three_prime_UTR 40.0%
! TTTGTACTGGCCATCAAGTA+AGG - Chr5:108211443-108211462 MsG0580030204.01.T01:CDS 40.0%
!! GGTGTTGATCTATTTGCTTG+AGG - Chr5:108211707-108211726 MsG0580030204.01.T01:CDS 40.0%
AATTACAGAGCTTGGGAGCA+CGG + Chr5:108210373-108210392 None:intergenic 45.0%
CAATCAAGGCTCATTCAGTG+TGG + Chr5:108210885-108210904 None:intergenic 45.0%
CAGCGGATATCCTTACTTGA+TGG + Chr5:108211456-108211475 None:intergenic 45.0%
GATAGCTGCACAGGTATCAA+TGG - Chr5:108211243-108211262 MsG0580030204.01.T01:intron 45.0%
GGCGATGTGGTCAATAATTG+AGG + Chr5:108211087-108211106 None:intergenic 45.0%
TTCATTGGTGGAGACTGCTA+AGG - Chr5:108211342-108211361 MsG0580030204.01.T01:intron 45.0%
!! TAATAATAATAATAATAATC+AGG + Chr5:108211679-108211698 None:intergenic 5.0%
AAGGTAATCCGTGAGCTCAG+TGG - Chr5:108210335-108210354 MsG0580030204.01.T01:three_prime_UTR 50.0%
ATTGGTGGAGACTGCTAAGG+AGG - Chr5:108211345-108211364 MsG0580030204.01.T01:intron 50.0%
CAGTGTGGATCCACCATGAA+AGG + Chr5:108210870-108210889 None:intergenic 50.0%
GAATCACTCCACTGAGCTCA+CGG + Chr5:108210346-108210365 None:intergenic 50.0%
TCTAATTGCTGGCGAGCTTC+AGG - Chr5:108211192-108211211 MsG0580030204.01.T01:intron 50.0%
!! TGCTCGGTTGATAGCTGCAC+AGG - Chr5:108211234-108211253 MsG0580030204.01.T01:intron 55.0%
Chromosome Type Strat End Strand Name
Chr5 gene 108210299 108211766 108210299 ID=MsG0580030204.01;Name=MsG0580030204.01
Chr5 mRNA 108210299 108211766 108210299 ID=MsG0580030204.01.T01;Parent=MsG0580030204.01;Name=MsG0580030204.01.T01;_AED=0.49;_eAED=0.51;_QI=0|1|0.8|1|1|1|5|355|144
Chr5 exon 108210299 108210725 108210299 ID=MsG0580030204.01.T01:exon:17647;Parent=MsG0580030204.01.T01
Chr5 exon 108210810 108210896 108210810 ID=MsG0580030204.01.T01:exon:17646;Parent=MsG0580030204.01.T01
Chr5 exon 108211278 108211313 108211278 ID=MsG0580030204.01.T01:exon:17645;Parent=MsG0580030204.01.T01
Chr5 exon 108211427 108211535 108211427 ID=MsG0580030204.01.T01:exon:17644;Parent=MsG0580030204.01.T01
Chr5 exon 108211636 108211766 108211636 ID=MsG0580030204.01.T01:exon:17643;Parent=MsG0580030204.01.T01
Chr5 CDS 108211636 108211766 108211636 ID=MsG0580030204.01.T01:cds;Parent=MsG0580030204.01.T01
Chr5 CDS 108211427 108211535 108211427 ID=MsG0580030204.01.T01:cds;Parent=MsG0580030204.01.T01
Chr5 CDS 108211278 108211313 108211278 ID=MsG0580030204.01.T01:cds;Parent=MsG0580030204.01.T01
Chr5 CDS 108210810 108210896 108210810 ID=MsG0580030204.01.T01:cds;Parent=MsG0580030204.01.T01
Chr5 CDS 108210654 108210725 108210654 ID=MsG0580030204.01.T01:cds;Parent=MsG0580030204.01.T01
Chr5 three_prime_UTR 108210299 108210653 108210299 ID=MsG0580030204.01.T01:three_prime_utr;Parent=MsG0580030204.01.T01
Gene Sequence

>MsG0580030204.01.T01

TTGATATGTGTATTTACATCTCATATTTTTATTGACAAGGTAATCCGTGAGCTCAGTGGAGTGATTCTTAGCCGTGCTCCCAAGCTCTGTAATTTTGTAGAGTGGAGAGGATATAAAGTTGTTTATAAAAGATATGCTAGTCTATATTTCTGTATGTGTATTGATGATGCTGACAACGAATTGGAAGTACTTGAAATGATTCATCATTTTGTGGAGATTCTTGATCGGTATTTTGGCAGTGTCTGTGAATTGGACTTGATATTCAACTTCCATAAGGCCTATTATATACTTGATGAAATTCTAATTGCTGGCGAGCTTCAGGAGTCGAGCAAAAAAACTGTTGCTCGGTTGATAGCTGCACAGGATTCATTGGTGGAGACTGCTAAGGAGGAAGCCAGTTCCTTGAGTAATATTATCGCACAAGCTACTAAATAA

Protein sequence

>MsG0580030204.01.T01

LICVFTSHIFIDKVIRELSGVILSRAPKLCNFVEWRGYKVVYKRYASLYFCMCIDDADNELEVLEMIHHFVEILDRYFGSVCELDLIFNFHKAYYILDEILIAGELQESSKKTVARLIAAQDSLVETAKEEASSLSNIIAQATK*