AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180000678.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180000678.01.T01 MTR_1g010080 60.000 130 10 3 24 124 113 229 4.07e-42 139
MsG0180000678.01.T01 MTR_1g010080 60.000 130 10 3 24 124 145 261 1.80e-41 138
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 22 sgRNAs with CRISPR-Local

Find 62 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAAATAACTCACAGGTTTCC+AGG 0.331617 1:-9644234 None:intergenic
GGACCTTCAACAGCTGAAAT+AGG 0.346276 1:-9644213 None:intergenic
AACAGCTGAAATAGGCATTA+CGG 0.420870 1:-9644205 None:intergenic
TGGTACAAGGTTATGATGAA+TGG 0.432437 1:+9644512 MsG0180000678.01.T01:CDS
ATTTCAGCTGTTGAAGGTCC+TGG 0.441470 1:+9644216 MsG0180000678.01.T01:CDS
ATGCCTATTTCAGCTGTTGA+AGG 0.446776 1:+9644210 MsG0180000678.01.T01:CDS
ACAGCTGAAATAGGCATTAC+GGG 0.463956 1:-9644204 None:intergenic
CTACTTCAACAGATGGTACA+AGG 0.480356 1:+9644499 MsG0180000678.01.T01:CDS
GGTACAAGGTTATGATGAAT+GGG 0.494532 1:+9644513 MsG0180000678.01.T01:CDS
CAGAATGATGCAAGCTTTGG+TGG 0.509605 1:+9644459 MsG0180000678.01.T01:CDS
GTTTGAGGGTTCAGAGATTG+TGG 0.521336 1:+9643668 MsG0180000678.01.T01:CDS
AATTTCCTTCACTAGAAGAC+TGG 0.521730 1:-9644561 None:intergenic
GTGCAGAATGATGCAAGCTT+TGG 0.528382 1:+9644456 MsG0180000678.01.T01:CDS
CTAAACCAGTCTTCTAGTGA+AGG 0.557650 1:+9644556 MsG0180000678.01.T01:CDS
AATAGGCATTACGGGTGGAA+TGG 0.578365 1:-9644196 None:intergenic
ACCATCTGTTGAAGTAGAAG+TGG 0.580440 1:-9644493 None:intergenic
ATATTATAATATAGAAAATG+TGG 0.587363 1:+9644429 MsG0180000678.01.T01:CDS
TAGTAGAGACAACAGAGGGA+GGG 0.616278 1:+9644587 MsG0180000678.01.T01:CDS
GCCACTTCTACTTCAACAGA+TGG 0.618609 1:+9644492 MsG0180000678.01.T01:CDS
TTTGTAGTAGAGACAACAGA+GGG 0.633580 1:+9644583 MsG0180000678.01.T01:CDS
GTAGTAGAGACAACAGAGGG+AGG 0.648680 1:+9644586 MsG0180000678.01.T01:CDS
GCTGAAATAGGCATTACGGG+TGG 0.703629 1:-9644201 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATATTATAATATAGAAAATG+TGG + Chr1:9644429-9644448 MsG0180000678.01.T01:CDS 10.0%
!! ATGTTTATTAATCATTTCTA+TGG + Chr1:9643898-9643917 MsG0180000678.01.T01:intron 15.0%
!!! TTTTTTTATAACCATGTTAT+CGG + Chr1:9643740-9643759 MsG0180000678.01.T01:intron 15.0%
!! ACAAACCATTATATCAAATT+TGG - Chr1:9644318-9644337 None:intergenic 20.0%
!! TAGAATCATATAATATCACA+AGG - Chr1:9644385-9644404 None:intergenic 20.0%
!! TCATACCAAATTTGATATAA+TGG + Chr1:9644310-9644329 MsG0180000678.01.T01:intron 20.0%
!!! ACAGAATATTTTTTAGATGT+AGG - Chr1:9644160-9644179 None:intergenic 20.0%
!!! ATATTTTTTTTGCAGTTTGA+GGG + Chr1:9643654-9643673 MsG0180000678.01.T01:CDS 20.0%
!!! GAAGTATTCAAAAATGAAAT+GGG - Chr1:9643631-9643650 None:intergenic 20.0%
!!! TATATTTTTTTTGCAGTTTG+AGG + Chr1:9643653-9643672 MsG0180000678.01.T01:CDS 20.0%
!!! TGAAGTATTCAAAAATGAAA+TGG - Chr1:9643632-9643651 None:intergenic 20.0%
! AATTGAAATAGCAAGGATTA+AGG - Chr1:9644084-9644103 None:intergenic 25.0%
! GATAAGAAATTGAAATAGCA+AGG - Chr1:9644091-9644110 None:intergenic 25.0%
! TTATGAACTAAATAACTCAC+AGG - Chr1:9644245-9644264 None:intergenic 25.0%
!!! TTTTTTCAAGTCCATAACAA+TGG + Chr1:9643859-9643878 MsG0180000678.01.T01:intron 25.0%
CAAAAATGAAATGGGATAAG+TGG - Chr1:9643623-9643642 None:intergenic 30.0%
GTTATGGACTTGAAAAAATG+TGG - Chr1:9643857-9643876 None:intergenic 30.0%
TTATGGTAAATCACATGACA+TGG + Chr1:9643932-9643951 MsG0180000678.01.T01:intron 30.0%
TTGAAAAAATGTGGTTGAGA+TGG - Chr1:9643848-9643867 None:intergenic 30.0%
!!! TGCTGATACTGATTCATTTT+TGG + Chr1:9643960-9643979 MsG0180000678.01.T01:intron 30.0%
AACAGCTGAAATAGGCATTA+CGG - Chr1:9644208-9644227 None:intergenic 35.0%
AATAAACATTGCTGCGACAT+GGG - Chr1:9643887-9643906 None:intergenic 35.0%
AATTTCCTTCACTAGAAGAC+TGG - Chr1:9644564-9644583 None:intergenic 35.0%
CTATGGATTTGCAGCATTTA+TGG + Chr1:9643915-9643934 MsG0180000678.01.T01:intron 35.0%
GGTACAAGGTTATGATGAAT+GGG + Chr1:9644513-9644532 MsG0180000678.01.T01:CDS 35.0%
TAAATAACTCACAGGTTTCC+AGG - Chr1:9644237-9644256 None:intergenic 35.0%
TAATAAACATTGCTGCGACA+TGG - Chr1:9643888-9643907 None:intergenic 35.0%
TGAAATAGCAAGGATTAAGG+AGG - Chr1:9644081-9644100 None:intergenic 35.0%
TGGTACAAGGTTATGATGAA+TGG + Chr1:9644512-9644531 MsG0180000678.01.T01:CDS 35.0%
TTTGTAGTAGAGACAACAGA+GGG + Chr1:9644583-9644602 MsG0180000678.01.T01:CDS 35.0%
! TTTTGTAGTAGAGACAACAG+AGG + Chr1:9644582-9644601 MsG0180000678.01.T01:CDS 35.0%
ACAGCTGAAATAGGCATTAC+GGG - Chr1:9644207-9644226 None:intergenic 40.0%
ACCATCTGTTGAAGTAGAAG+TGG - Chr1:9644496-9644515 None:intergenic 40.0%
ATGCCTATTTCAGCTGTTGA+AGG + Chr1:9644210-9644229 MsG0180000678.01.T01:CDS 40.0%
ATGGAAGACCCCATTAAAAG+TGG - Chr1:9643829-9643848 None:intergenic 40.0%
ATTAGTTAAGGCAAAGCTGG+TGG - Chr1:9643776-9643795 None:intergenic 40.0%
CTAAACCAGTCTTCTAGTGA+AGG + Chr1:9644556-9644575 MsG0180000678.01.T01:CDS 40.0%
CTACTTCAACAGATGGTACA+AGG + Chr1:9644499-9644518 MsG0180000678.01.T01:CDS 40.0%
GAAGTTGAATCTCACACTTG+AGG + Chr1:9643993-9644012 MsG0180000678.01.T01:intron 40.0%
TTGCCTTAACTAATCTCCGT+CGG + Chr1:9643782-9643801 MsG0180000678.01.T01:intron 40.0%
! GAGATTAGTTAAGGCAAAGC+TGG - Chr1:9643779-9643798 None:intergenic 40.0%
!!! AGTGACTGGCCACTTTTAAT+GGG + Chr1:9643817-9643836 MsG0180000678.01.T01:intron 40.0%
AATAGGCATTACGGGTGGAA+TGG - Chr1:9644199-9644218 None:intergenic 45.0%
ATTTCAGCTGTTGAAGGTCC+TGG + Chr1:9644216-9644235 MsG0180000678.01.T01:CDS 45.0%
CGACATGGGATCCATTGTTA+TGG - Chr1:9643873-9643892 None:intergenic 45.0%
GCCACTTCTACTTCAACAGA+TGG + Chr1:9644492-9644511 MsG0180000678.01.T01:CDS 45.0%
GGACCTTCAACAGCTGAAAT+AGG - Chr1:9644216-9644235 None:intergenic 45.0%
GTGCAGAATGATGCAAGCTT+TGG + Chr1:9644456-9644475 MsG0180000678.01.T01:CDS 45.0%
GTTTGAGGGTTCAGAGATTG+TGG + Chr1:9643668-9643687 MsG0180000678.01.T01:CDS 45.0%
TAGTAGAGACAACAGAGGGA+GGG + Chr1:9644587-9644606 MsG0180000678.01.T01:CDS 45.0%
TGCCTTAACTAATCTCCGTC+GGG + Chr1:9643783-9643802 MsG0180000678.01.T01:intron 45.0%
! CAGAATGATGCAAGCTTTGG+TGG + Chr1:9644459-9644478 MsG0180000678.01.T01:CDS 45.0%
! GAGCTAAACGAGCACTTTTC+AGG + Chr1:9643693-9643712 MsG0180000678.01.T01:CDS 45.0%
! GATACTTCGCACCGATAACA+TGG - Chr1:9643754-9643773 None:intergenic 45.0%
!!! GAGTGACTGGCCACTTTTAA+TGG + Chr1:9643816-9643835 MsG0180000678.01.T01:intron 45.0%
!!! GTGACTGGCCACTTTTAATG+GGG + Chr1:9643818-9643837 MsG0180000678.01.T01:intron 45.0%
CACTCAATCAGATTCCCCGA+CGG - Chr1:9643801-9643820 None:intergenic 50.0%
GCCTTAACTAATCTCCGTCG+GGG + Chr1:9643784-9643803 MsG0180000678.01.T01:intron 50.0%
GCTGAAATAGGCATTACGGG+TGG - Chr1:9644204-9644223 None:intergenic 50.0%
GGGGAATCTGATTGAGTGAC+TGG + Chr1:9643803-9643822 MsG0180000678.01.T01:intron 50.0%
GTAGTAGAGACAACAGAGGG+AGG + Chr1:9644586-9644605 MsG0180000678.01.T01:CDS 50.0%
! TCCCCGACGGAGATTAGTTA+AGG - Chr1:9643788-9643807 None:intergenic 50.0%
Chromosome Type Strat End Strand Name
Chr1 gene 9643597 9644621 9643597 ID=MsG0180000678.01;Name=MsG0180000678.01
Chr1 mRNA 9643597 9644621 9643597 ID=MsG0180000678.01.T01;Parent=MsG0180000678.01;Name=MsG0180000678.01.T01;_AED=0.50;_eAED=0.66;_QI=0|0|0|1|0.5|0.66|3|0|124
Chr1 exon 9643597 9643714 9643597 ID=MsG0180000678.01.T01:exon:1818;Parent=MsG0180000678.01.T01
Chr1 exon 9644187 9644244 9644187 ID=MsG0180000678.01.T01:exon:1817;Parent=MsG0180000678.01.T01
Chr1 exon 9644423 9644621 9644423 ID=MsG0180000678.01.T01:exon:1816;Parent=MsG0180000678.01.T01
Chr1 CDS 9643597 9643714 9643597 ID=MsG0180000678.01.T01:cds;Parent=MsG0180000678.01.T01
Chr1 CDS 9644187 9644244 9644187 ID=MsG0180000678.01.T01:cds;Parent=MsG0180000678.01.T01
Chr1 CDS 9644423 9644621 9644423 ID=MsG0180000678.01.T01:cds;Parent=MsG0180000678.01.T01
Gene Sequence

>MsG0180000678.01.T01

ATGCATCTTTGCAACATTCTTAGCCACTTATCCCATTTCATTTTTGAATACTTCACTATATTTTTTTTGCAGTTTGAGGGTTCAGAGATTGTGGAAGAGCTAAACGAGCACTTTTCAGATCTACACACCATTCCACCCGTAATGCCTATTTCAGCTGTTGAAGGTCCTGGAAACCTAATCAAATATTATAATATAGAAAATGTGGCTATGTGCAGAATGATGCAAGCTTTGGTGGACAAGCTCGTGCCACTTCTACTTCAACAGATGGTACAAGGTTATGATGAATGGGTTCAAAAGCAACTGTATTATCTAAACCAGTCTTCTAGTGAAGGAAATTTTGTAGTAGAGACAACAGAGGGAGGGAGAACCTTTTGA

Protein sequence

>MsG0180000678.01.T01

MHLCNILSHLSHFIFEYFTIFFLQFEGSEIVEELNEHFSDLHTIPPVMPISAVEGPGNLIKYYNIENVAMCRMMQALVDKLVPLLLQQMVQGYDEWVQKQLYYLNQSSSEGNFVVETTEGGRTF*