AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180005787.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180005787.01.T01 MTR_1g107045 97.970 197 4 0 1 197 1 197 1.96e-142 397
MsG0180005787.01.T01 MTR_1g107045 97.970 197 4 0 1 197 1 197 8.33e-142 397
MsG0180005787.01.T01 MTR_1g107045 97.970 197 4 0 1 197 1 197 1.03e-141 397
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180005787.01.T01 AT4G34270 69.697 198 58 2 1 197 1 197 3.36e-95 280

Find 48 sgRNAs with CRISPR-Local

Find 94 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTCTTCCCAATGGAGATTTC+CGG 0.291418 1:-96143827 None:intergenic
GACATCTCATTTACCAGAAA+TGG 0.306200 1:+96143179 MsG0180005787.01.T01:CDS
GAGGATGAACTCGCTGATAA+TGG 0.365438 1:+96144267 MsG0180005787.01.T01:CDS
ATTCTAAAACATTTGAATAG+TGG 0.374855 1:+96143222 MsG0180005787.01.T01:CDS
GCCGCAGCAGGAACTTCAAC+AGG 0.413392 1:-96143306 None:intergenic
ATAGCACCGCTTCCACAATA+AGG 0.414929 1:-96143607 None:intergenic
AAGTTCCTGCTGCGGCGAAA+TGG 0.423704 1:+96143313 MsG0180005787.01.T01:CDS
AAAGAAGCAAACGATGGAAT+TGG 0.423986 1:+96142896 MsG0180005787.01.T01:exon
AACTTCCATTTCGCCGCAGC+AGG 0.427787 1:-96143318 None:intergenic
CGGCGAAATGGAAGTTTAGA+AGG 0.438011 1:+96143325 MsG0180005787.01.T01:CDS
AGAAATTGATTTAGTTGCAT+TGG 0.439296 1:+96143858 MsG0180005787.01.T01:CDS
TGATTACTCTTGAACGGTTG+AGG 0.452835 1:-96143036 None:intergenic
TCTAATATCACTTCCTCAAA+GGG 0.462313 1:-96143562 None:intergenic
AACGGTTGAGGAGTTGAGAA+TGG 0.463074 1:-96143024 None:intergenic
CGGAGAGGCATTCGCATCCA+TGG 0.465226 1:+96142975 MsG0180005787.01.T01:CDS
ATAGAAAAGTATAGGCTCCT+TGG 0.468051 1:-96143884 None:intergenic
GTCACTTCTTACTGTAAAAG+TGG 0.472430 1:+96144293 MsG0180005787.01.T01:CDS
AAGTCTTCGACGACGGTGGC+CGG 0.477533 1:+96142955 MsG0180005787.01.T01:CDS
ACAAAGATTTCTGAGGAAAC+CGG 0.482719 1:+96143808 MsG0180005787.01.T01:CDS
AAAAGTGGTAAATACTGATC+TGG 0.482742 1:+96144308 MsG0180005787.01.T01:CDS
CATGGATGCGAATGCCTCTC+CGG 0.483602 1:-96142974 None:intergenic
CATTTGATGCTTTATGTGGT+TGG 0.485832 1:+96143265 MsG0180005787.01.T01:CDS
ATCTAATATCACTTCCTCAA+AGG 0.487831 1:-96143563 None:intergenic
GGCGCTGAAGTCTTCGACGA+CGG 0.491989 1:+96142948 MsG0180005787.01.T01:CDS
AGGAAACCGGAAATCTCCAT+TGG 0.511936 1:+96143821 MsG0180005787.01.T01:CDS
AAAGCATTTGATGCTTTATG+TGG 0.512477 1:+96143261 MsG0180005787.01.T01:CDS
GAGGCATTCGCATCCATGGC+TGG 0.517047 1:+96142979 MsG0180005787.01.T01:CDS
ACAACGCCTTATTGTGGAAG+CGG 0.520421 1:+96143601 MsG0180005787.01.T01:CDS
AATGTGCAGCAAGCCCTTTG+AGG 0.520495 1:+96143549 MsG0180005787.01.T01:intron
ACCTCATCATAGAAAAGTAT+AGG 0.526447 1:-96143892 None:intergenic
CTTCCTTGCAGTCTTCCCAA+TGG 0.528278 1:-96143837 None:intergenic
TTTAGTTGCATTGGCATCCA+AGG 0.540509 1:+96143867 MsG0180005787.01.T01:CDS
GTCGAAGACTTCAGCGCCGG+CGG 0.562344 1:-96142943 None:intergenic
TCTCCATTGGGAAGACTGCA+AGG 0.572211 1:+96143834 MsG0180005787.01.T01:CDS
GGAAACCGGAAATCTCCATT+GGG 0.574133 1:+96143822 MsG0180005787.01.T01:CDS
TGAACAGGTGGTGCTATATG+AGG 0.576020 1:+96144248 MsG0180005787.01.T01:intron
ACATTTACAACGCCTTATTG+TGG 0.581460 1:+96143595 MsG0180005787.01.T01:CDS
TGGAATTGATTACTCTTGAA+CGG 0.589845 1:-96143042 None:intergenic
GTCGTCGAAGACTTCAGCGC+CGG 0.601946 1:-96142946 None:intergenic
TTCGACGACGGTGGCCGGAG+AGG 0.613847 1:+96142960 MsG0180005787.01.T01:CDS
GAGAACGACTTGAAAGCCGC+CGG 0.625524 1:+96142927 MsG0180005787.01.T01:CDS
GAGACTCGATCAACCAGCCA+TGG 0.626192 1:-96142992 None:intergenic
ACCTGTTGAAGTTCCTGCTG+CGG 0.630692 1:+96143305 MsG0180005787.01.T01:CDS
AATCTGGAAACGAAACGCAA+AGG 0.637938 1:+96142871 MsG0180005787.01.T01:five_prime_UTR
GCAGCAGGAACTTCAACAGG+TGG 0.641693 1:-96143303 None:intergenic
GCTGAAGTCTTCGACGACGG+TGG 0.644989 1:+96142951 MsG0180005787.01.T01:CDS
GAATGGGACAAAGATTTCTG+AGG 0.645664 1:+96143801 MsG0180005787.01.T01:intron
AAGGAGAAAGAAGCAAACGA+TGG 0.665309 1:+96142890 MsG0180005787.01.T01:exon

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTATGGTATTTAATTTTTTA+TGG + Chr1:96143776-96143795 MsG0180005787.01.T01:intron 10.0%
!!! TTAATTTTTTATGGTAGAAT+GGG + Chr1:96143785-96143804 MsG0180005787.01.T01:intron 15.0%
!!! TTTAATTTTTTATGGTAGAA+TGG + Chr1:96143784-96143803 MsG0180005787.01.T01:intron 15.0%
!! ATGACTCAAATAAATGAAAA+AGG - Chr1:96143661-96143680 None:intergenic 20.0%
!! TACTACAAAAAACATTATCA+GGG - Chr1:96143686-96143705 None:intergenic 20.0%
!! TTACTACAAAAAACATTATC+AGG - Chr1:96143687-96143706 None:intergenic 20.0%
!!! ATAATGTTTTTTGTAGTAAG+AGG + Chr1:96143688-96143707 MsG0180005787.01.T01:intron 20.0%
!!! ATTCTAAAACATTTGAATAG+TGG + Chr1:96143222-96143241 MsG0180005787.01.T01:CDS 20.0%
!!! ATTTATATTTTCTTCCTTGA+TGG + Chr1:96144193-96144212 MsG0180005787.01.T01:intron 20.0%
!!! ATTTTTTCCAAGATAACATA+AGG - Chr1:96143532-96143551 None:intergenic 20.0%
!!! CAAATTAGTGTTACTTTTTT+AGG + Chr1:96143407-96143426 MsG0180005787.01.T01:intron 20.0%
! ATGAAATGTAAATACCATCA+AGG - Chr1:96144210-96144229 None:intergenic 25.0%
! TATTGAGATTGAAAAAGAAC+TGG + Chr1:96143627-96143646 MsG0180005787.01.T01:CDS 25.0%
!! AAGTTTAGAAGGTATGAATT+TGG + Chr1:96143336-96143355 MsG0180005787.01.T01:intron 25.0%
!! AGAAATTGATTTAGTTGCAT+TGG + Chr1:96143858-96143877 MsG0180005787.01.T01:CDS 25.0%
!! ATTTACCAGAAATGGTTTTT+GGG + Chr1:96143187-96143206 MsG0180005787.01.T01:CDS 25.0%
!! GCTTGCTAAATAATCATTTA+AGG - Chr1:96143930-96143949 None:intergenic 25.0%
!! TTGTACTATGCTGTTATTTA+TGG + Chr1:96143759-96143778 MsG0180005787.01.T01:intron 25.0%
AAAAGTGGTAAATACTGATC+TGG + Chr1:96144308-96144327 MsG0180005787.01.T01:CDS 30.0%
AATGAATTCTCATCATGAAC+AGG + Chr1:96144233-96144252 MsG0180005787.01.T01:intron 30.0%
ATCTAATATCACTTCCTCAA+AGG - Chr1:96143566-96143585 None:intergenic 30.0%
GAATACATCTATTCTGATTC+TGG - Chr1:96144135-96144154 None:intergenic 30.0%
GTTTATGCAAATTACTGTGA+GGG + Chr1:96144361-96144380 MsG0180005787.01.T01:CDS 30.0%
TCTAATATCACTTCCTCAAA+GGG - Chr1:96143565-96143584 None:intergenic 30.0%
TGGAATTGATTACTCTTGAA+CGG - Chr1:96143045-96143064 None:intergenic 30.0%
TGTTTATGCAAATTACTGTG+AGG + Chr1:96144360-96144379 MsG0180005787.01.T01:CDS 30.0%
! AAAGCATTTGATGCTTTATG+TGG + Chr1:96143261-96143280 MsG0180005787.01.T01:CDS 30.0%
! ACCTCATCATAGAAAAGTAT+AGG - Chr1:96143895-96143914 None:intergenic 30.0%
! ATACTTTTCTATGATGAGGT+AGG + Chr1:96143895-96143914 MsG0180005787.01.T01:intron 30.0%
! CATTTACCAGAAATGGTTTT+TGG + Chr1:96143186-96143205 MsG0180005787.01.T01:CDS 30.0%
! TTTACCAGAAATGGTTTTTG+GGG + Chr1:96143188-96143207 MsG0180005787.01.T01:CDS 30.0%
AAAGAAGCAAACGATGGAAT+TGG + Chr1:96142896-96142915 MsG0180005787.01.T01:exon 35.0%
ACAACTATAACGAACTGATG+GGG - Chr1:96144016-96144035 None:intergenic 35.0%
ATAACATAAGGCTAACAGCA+AGG - Chr1:96143520-96143539 None:intergenic 35.0%
CACAACTATAACGAACTGAT+GGG - Chr1:96144017-96144036 None:intergenic 35.0%
CATTTGATGCTTTATGTGGT+TGG + Chr1:96143265-96143284 MsG0180005787.01.T01:CDS 35.0%
CGTGAAATTGTTGTCATTGA+TGG + Chr1:96143130-96143149 MsG0180005787.01.T01:intron 35.0%
GACATCTCATTTACCAGAAA+TGG + Chr1:96143179-96143198 MsG0180005787.01.T01:CDS 35.0%
GCATGGTCAACTAGTAAAAA+TGG - Chr1:96144042-96144061 None:intergenic 35.0%
GTCACTTCTTACTGTAAAAG+TGG + Chr1:96144293-96144312 MsG0180005787.01.T01:CDS 35.0%
GTTTCACACTTTCACTAGTA+AGG - Chr1:96144069-96144088 None:intergenic 35.0%
TATTCGTGTTTACTTAGCTG+AGG + Chr1:96144150-96144169 MsG0180005787.01.T01:intron 35.0%
TTCACTAGTAAGGATTTGCA+TGG - Chr1:96144059-96144078 None:intergenic 35.0%
! ACAAAGATTTCTGAGGAAAC+CGG + Chr1:96143808-96143827 MsG0180005787.01.T01:CDS 35.0%
! ACATTTACAACGCCTTATTG+TGG + Chr1:96143595-96143614 MsG0180005787.01.T01:CDS 35.0%
! ATAGAAAAGTATAGGCTCCT+TGG - Chr1:96143887-96143906 None:intergenic 35.0%
! GCCTATACTTTTCTATGATG+AGG + Chr1:96143891-96143910 MsG0180005787.01.T01:CDS 35.0%
! TTTTCCCCAAAAACCATTTC+TGG - Chr1:96143195-96143214 None:intergenic 35.0%
!! CTGTTAGCCTTATGTTATCT+TGG + Chr1:96143522-96143541 MsG0180005787.01.T01:intron 35.0%
!! GTAAGAGGTTTTGTAGTAAG+CGG + Chr1:96143703-96143722 MsG0180005787.01.T01:intron 35.0%
AAGGAGAAAGAAGCAAACGA+TGG + Chr1:96142890-96142909 MsG0180005787.01.T01:exon 40.0%
AATCTGGAAACGAAACGCAA+AGG + Chr1:96142871-96142890 MsG0180005787.01.T01:five_prime_UTR 40.0%
AGATGAATGTGTGCGATGTT+TGG - Chr1:96143065-96143084 None:intergenic 40.0%
GAATGGGACAAAGATTTCTG+AGG + Chr1:96143801-96143820 MsG0180005787.01.T01:intron 40.0%
GAATTCTCATCATGAACAGG+TGG + Chr1:96144236-96144255 MsG0180005787.01.T01:intron 40.0%
GCACAACTATAACGAACTGA+TGG - Chr1:96144018-96144037 None:intergenic 40.0%
TGATTACTCTTGAACGGTTG+AGG - Chr1:96143039-96143058 None:intergenic 40.0%
! GTTGTCATTGATGGTTATGC+AGG + Chr1:96143139-96143158 MsG0180005787.01.T01:intron 40.0%
! TCATTGATGGTTATGCAGGT+GGG + Chr1:96143143-96143162 MsG0180005787.01.T01:intron 40.0%
! TTTAGTTGCATTGGCATCCA+AGG + Chr1:96143867-96143886 MsG0180005787.01.T01:CDS 40.0%
AAAAACAGCCCTGACACAAG+GGG - Chr1:96143952-96143971 None:intergenic 45.0%
AACGGTTGAGGAGTTGAGAA+TGG - Chr1:96143027-96143046 None:intergenic 45.0%
ACAAAAACAGCCCTGACACA+AGG - Chr1:96143954-96143973 None:intergenic 45.0%
AGGAAACCGGAAATCTCCAT+TGG + Chr1:96143821-96143840 MsG0180005787.01.T01:CDS 45.0%
ATAGCACCGCTTCCACAATA+AGG - Chr1:96143610-96143629 None:intergenic 45.0%
CAAAAACAGCCCTGACACAA+GGG - Chr1:96143953-96143972 None:intergenic 45.0%
CGGCGAAATGGAAGTTTAGA+AGG + Chr1:96143325-96143344 MsG0180005787.01.T01:CDS 45.0%
GAGGATGAACTCGCTGATAA+TGG + Chr1:96144267-96144286 MsG0180005787.01.T01:CDS 45.0%
GGAAACCGGAAATCTCCATT+GGG + Chr1:96143822-96143841 MsG0180005787.01.T01:CDS 45.0%
GTCTTCCCAATGGAGATTTC+CGG - Chr1:96143830-96143849 None:intergenic 45.0%
! ACAACGCCTTATTGTGGAAG+CGG + Chr1:96143601-96143620 MsG0180005787.01.T01:CDS 45.0%
! GTCATTGATGGTTATGCAGG+TGG + Chr1:96143142-96143161 MsG0180005787.01.T01:intron 45.0%
!! TGAACAGGTGGTGCTATATG+AGG + Chr1:96144248-96144267 MsG0180005787.01.T01:intron 45.0%
AATGTGCAGCAAGCCCTTTG+AGG + Chr1:96143549-96143568 MsG0180005787.01.T01:intron 50.0%
ACCTGTTGAAGTTCCTGCTG+CGG + Chr1:96143305-96143324 MsG0180005787.01.T01:CDS 50.0%
CTTCCTTGCAGTCTTCCCAA+TGG - Chr1:96143840-96143859 None:intergenic 50.0%
TCTCCATTGGGAAGACTGCA+AGG + Chr1:96143834-96143853 MsG0180005787.01.T01:CDS 50.0%
TTAGCAAGCCCCTTGTGTCA+GGG + Chr1:96143941-96143960 MsG0180005787.01.T01:intron 50.0%
TTTAGCAAGCCCCTTGTGTC+AGG + Chr1:96143940-96143959 MsG0180005787.01.T01:intron 50.0%
AACTTCCATTTCGCCGCAGC+AGG - Chr1:96143321-96143340 None:intergenic 55.0%
AAGTTCCTGCTGCGGCGAAA+TGG + Chr1:96143313-96143332 MsG0180005787.01.T01:CDS 55.0%
CATGGATGCGAATGCCTCTC+CGG - Chr1:96142977-96142996 None:intergenic 55.0%
GAGAACGACTTGAAAGCCGC+CGG + Chr1:96142927-96142946 MsG0180005787.01.T01:CDS 55.0%
GAGACTCGATCAACCAGCCA+TGG - Chr1:96142995-96143014 None:intergenic 55.0%
GCAGCAGGAACTTCAACAGG+TGG - Chr1:96143306-96143325 None:intergenic 55.0%
AAGTCTTCGACGACGGTGGC+CGG + Chr1:96142955-96142974 MsG0180005787.01.T01:CDS 60.0%
GCCGCAGCAGGAACTTCAAC+AGG - Chr1:96143309-96143328 None:intergenic 60.0%
GCTGAAGTCTTCGACGACGG+TGG + Chr1:96142951-96142970 MsG0180005787.01.T01:CDS 60.0%
GTCGTCGAAGACTTCAGCGC+CGG - Chr1:96142949-96142968 None:intergenic 60.0%
! GAGGCATTCGCATCCATGGC+TGG + Chr1:96142979-96142998 MsG0180005787.01.T01:CDS 60.0%
! GGCGCTGAAGTCTTCGACGA+CGG + Chr1:96142948-96142967 MsG0180005787.01.T01:CDS 60.0%
!! CGGAGAGGCATTCGCATCCA+TGG + Chr1:96142975-96142994 MsG0180005787.01.T01:CDS 60.0%
! GTCGAAGACTTCAGCGCCGG+CGG - Chr1:96142946-96142965 None:intergenic 65.0%
TTCGACGACGGTGGCCGGAG+AGG + Chr1:96142960-96142979 MsG0180005787.01.T01:CDS 70.0%
Chromosome Type Strat End Strand Name
Chr1 gene 96142856 96144380 96142856 ID=MsG0180005787.01;Name=MsG0180005787.01
Chr1 mRNA 96142856 96144380 96142856 ID=MsG0180005787.01.T01;Parent=MsG0180005787.01;Name=MsG0180005787.01.T01;_AED=0.50;_eAED=0.54;_QI=53|1|0.8|1|1|1|5|0|218
Chr1 exon 96142856 96143051 96142856 ID=MsG0180005787.01.T01:exon:10555;Parent=MsG0180005787.01.T01
Chr1 exon 96143161 96143346 96143161 ID=MsG0180005787.01.T01:exon:10556;Parent=MsG0180005787.01.T01
Chr1 exon 96143558 96143648 96143558 ID=MsG0180005787.01.T01:exon:10557;Parent=MsG0180005787.01.T01
Chr1 exon 96143802 96143912 96143802 ID=MsG0180005787.01.T01:exon:10558;Parent=MsG0180005787.01.T01
Chr1 exon 96144255 96144380 96144255 ID=MsG0180005787.01.T01:exon:10559;Parent=MsG0180005787.01.T01
Chr1 five_prime_UTR 96142856 96142908 96142856 ID=MsG0180005787.01.T01:five_prime_utr;Parent=MsG0180005787.01.T01
Chr1 CDS 96142909 96143051 96142909 ID=MsG0180005787.01.T01:cds;Parent=MsG0180005787.01.T01
Chr1 CDS 96143161 96143346 96143161 ID=MsG0180005787.01.T01:cds;Parent=MsG0180005787.01.T01
Chr1 CDS 96143558 96143648 96143558 ID=MsG0180005787.01.T01:cds;Parent=MsG0180005787.01.T01
Chr1 CDS 96143802 96143912 96143802 ID=MsG0180005787.01.T01:cds;Parent=MsG0180005787.01.T01
Chr1 CDS 96144255 96144380 96144255 ID=MsG0180005787.01.T01:cds;Parent=MsG0180005787.01.T01
Gene Sequence

>MsG0180005787.01.T01

ATGGAATTGGAAGTCGACGAGAACGACTTGAAAGCCGCCGGCGCTGAAGTCTTCGACGACGGTGGCCGGAGAGGCATTCGCATCCATGGCTGGTTGATCGAGTCTCGTACTAACTCCATTCTCAACTCCTCAACCGTTCAAGAGTGGGAAAAGAAACTTGAGACATCTCATTTACCAGAAATGGTTTTTGGGGAAAACACTTTAATTCTAAAACATTTGAATAGTGGCACTAAAATTCACTTTAAAGCATTTGATGCTTTATGTGGTTGGAAACAAGAAGCTTTGCCACCTGTTGAAGTTCCTGCTGCGGCGAAATGGAAGTTTAGAAGCAAGCCCTTTGAGGAAGTGATATTAGATTACGACTATACATTTACAACGCCTTATTGTGGAAGCGGTGCTATTGAGATTGAAAAAGAACTGAATGGGACAAAGATTTCTGAGGAAACCGGAAATCTCCATTGGGAAGACTGCAAGGAAGAAATTGATTTAGTTGCATTGGCATCCAAGGAGCCTATACTTTTCTATGATGAGGTGGTGCTATATGAGGATGAACTCGCTGATAATGGAGTGTCACTTCTTACTGTAAAAGTGGTAAATACTGATCTGGTTTCTTCTGTTGATAGATTGTTCATTTTTTGTTTATGCAAATTACTGTGA

Protein sequence

>MsG0180005787.01.T01

MELEVDENDLKAAGAEVFDDGGRRGIRIHGWLIESRTNSILNSSTVQEWEKKLETSHLPEMVFGENTLILKHLNSGTKIHFKAFDALCGWKQEALPPVEVPAAAKWKFRSKPFEEVILDYDYTFTTPYCGSGAIEIEKELNGTKISEETGNLHWEDCKEEIDLVALASKEPILFYDEVVLYEDELADNGVSLLTVKVVNTDLVSSVDRLFIFCLCKLL*