AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880044058.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880044058.01.T01 MTR_8g446830 95.349 172 8 0 1 172 24 195 6.61e-121 339
MsG0880044058.01.T01 MTR_7g014880 49.708 171 73 5 1 162 25 191 3.95e-49 157
MsG0880044058.01.T01 MTR_8g085560 41.916 167 91 4 2 165 27 190 3.59e-39 132
MsG0880044058.01.T01 MTR_3g083760 52.252 111 52 1 2 112 22 131 8.82e-36 122
MsG0880044058.01.T01 MTR_3g083760 45.312 128 52 2 2 112 22 148 3.28e-31 112
MsG0880044058.01.T01 MTR_6g084630 36.752 117 66 5 22 133 1 114 7.08e-13 62.8
MsG0880044058.01.T01 MTR_3g085210 34.343 99 62 2 10 105 31 129 1.33e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880044058.01.T01 AT2G44300 50.568 176 71 3 3 163 27 201 9.16e-58 180
MsG0880044058.01.T01 AT2G44290 46.893 177 78 3 2 163 27 202 3.95e-54 171
MsG0880044058.01.T01 AT1G55260 35.583 163 101 4 2 163 67 226 1.17e-30 111
MsG0880044058.01.T01 AT1G55260 36.810 163 96 5 2 163 67 223 1.86e-30 110
MsG0880044058.01.T01 AT3G58550 40.800 125 71 2 2 124 29 152 5.37e-27 100
MsG0880044058.01.T01 AT1G73890 40.506 79 46 1 11 89 30 107 8.66e-13 63.9
MsG0880044058.01.T01 AT1G03103 30.065 153 94 4 11 159 25 168 2.60e-11 59.3

Find 39 sgRNAs with CRISPR-Local

Find 77 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACTTGAGCCTCAGCTGATT+TGG 0.222383 8:-34926422 None:intergenic
TGTGCATTCTTGTTTGTCTT+TGG 0.244832 8:-34925937 None:intergenic
ACCAGGACATTTAGAGATAT+TGG 0.273723 8:-34926174 None:intergenic
AGATCGTAATGATCCTGATT+TGG 0.316207 8:+34926091 MsG0880044058.01.T01:CDS
AGAAAAGAGAAGAGATTGAT+TGG 0.339081 8:+34926978 MsG0880044058.01.T01:CDS
ACTTGAGCCTCAGCTGATTT+GGG 0.345043 8:-34926421 None:intergenic
AAAAGTTATCACAACTAGTA+TGG 0.392346 8:+34927180 MsG0880044058.01.T01:three_prime_UTR
GATCGTAATGATCCTGATTT+GGG 0.411730 8:+34926092 MsG0880044058.01.T01:CDS
TTACAAAATGAAAACTTCAA+TGG 0.417535 8:-34927159 None:intergenic
TATAGTTATTAATGTTACTT+TGG 0.452178 8:+34926118 MsG0880044058.01.T01:CDS
TCTGTGTAGTACTTCTTGCT+TGG 0.453220 8:-34926941 None:intergenic
TCATGTCTCCCCTATGTTGA+AGG 0.464755 8:+34925981 MsG0880044058.01.T01:CDS
GAATGCACAGCTCAATTGAC+AGG 0.464888 8:+34925951 MsG0880044058.01.T01:CDS
GCCAATATCTCTAAATGTCC+TGG 0.474666 8:+34926173 MsG0880044058.01.T01:CDS
TTTCCTTCACCTTCAACATA+GGG 0.478002 8:-34925990 None:intergenic
GGACATTTAGAGATATTGGC+AGG 0.478911 8:-34926170 None:intergenic
ATAACTATACCACCCAAATC+AGG 0.482338 8:-34926104 None:intergenic
AGTGCTGCACCTAGTCCATC+AGG 0.483330 8:+34926484 MsG0880044058.01.T01:CDS
AGCACTTGGACTAATATTGC+TGG 0.486730 8:-34926467 None:intergenic
TGAATTAGAGCTGCTGCACA+TGG 0.506732 8:+34926396 MsG0880044058.01.T01:intron
GAAAAGAGAACAATCTTCAA+GGG 0.509786 8:-34927115 None:intergenic
TTGAGACCATCACAACAATC+TGG 0.516643 8:-34926023 None:intergenic
GCAGGGGCATTACAAACTGT+TGG 0.517485 8:-34926152 None:intergenic
AGAAAAGAGAACAATCTTCA+AGG 0.521093 8:-34927116 None:intergenic
CCATCACAACAATCTGGTGC+TGG 0.553657 8:-34926017 None:intergenic
AGTTTCATACCTGATGGACT+AGG 0.561670 8:-34926493 None:intergenic
CTCCCCTATGTTGAAGGTGA+AGG 0.561730 8:+34925987 MsG0880044058.01.T01:CDS
CCAGCACCAGATTGTTGTGA+TGG 0.573645 8:+34926017 MsG0880044058.01.T01:CDS
ACATTTAGAGATATTGGCAG+GGG 0.578847 8:-34926168 None:intergenic
GATGGACTAGGTGCAGCACT+TGG 0.582516 8:-34926481 None:intergenic
TCATGGACACTTGTTTAGTG+AGG 0.590872 8:+34927233 MsG0880044058.01.T01:three_prime_UTR
ATGATAATCAATATTCACAT+TGG 0.591247 8:-34927077 None:intergenic
GACATTTAGAGATATTGGCA+GGG 0.601482 8:-34926169 None:intergenic
TTCCTTCACCTTCAACATAG+GGG 0.609504 8:-34925989 None:intergenic
AAAAGAGAACAATCTTCAAG+GGG 0.629231 8:-34927114 None:intergenic
CGTAATGATCCTGATTTGGG+TGG 0.647273 8:+34926095 MsG0880044058.01.T01:CDS
CATGGATCCCAAATCAGCTG+AGG 0.670451 8:+34926414 MsG0880044058.01.T01:CDS
AATGCACAGCTCAATTGACA+GGG 0.698246 8:+34925952 MsG0880044058.01.T01:CDS
AAAGAGAACAATCTTCAAGG+GGG 0.729158 8:-34927113 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAATATTCAATAATTTTTAG+AGG + Chr8:34926789-34926808 MsG0880044058.01.T01:intron 10.0%
!!! TTTGTTTTTGTTTTTTAAAA+TGG + Chr8:34927209-34927228 MsG0880044058.01.T01:three_prime_UTR 10.0%
!! AATGACAAATAATAAAATTG+TGG + Chr8:34926841-34926860 MsG0880044058.01.T01:intron 15.0%
!! ATGACAAATAATAAAATTGT+GGG + Chr8:34926842-34926861 MsG0880044058.01.T01:intron 15.0%
!! TAAATTATTGCATATTTGTT+TGG - Chr8:34926732-34926751 None:intergenic 15.0%
!! TATGTATATATAAATTGTAG+AGG - Chr8:34926594-34926613 None:intergenic 15.0%
!!! GTTTTTTATCAATTAAACAA+TGG + Chr8:34926442-34926461 MsG0880044058.01.T01:CDS 15.0%
!!! TATAGTTATTAATGTTACTT+TGG + Chr8:34926118-34926137 MsG0880044058.01.T01:CDS 15.0%
!!! TTATTTCTCAATAATTTTAG+AGG + Chr8:34926749-34926768 MsG0880044058.01.T01:intron 15.0%
!! AAATGAGTCAAATTGATTAT+GGG + Chr8:34926240-34926259 MsG0880044058.01.T01:intron 20.0%
!! AACAATACATAATATATGCA+AGG - Chr8:34926299-34926318 None:intergenic 20.0%
!! ATGATAATCAATATTCACAT+TGG - Chr8:34927080-34927099 None:intergenic 20.0%
!! ATTAGCAAAAAATCACAATT+AGG - Chr8:34926878-34926897 None:intergenic 20.0%
!! TGACAAATAATAAAATTGTG+GGG + Chr8:34926843-34926862 MsG0880044058.01.T01:intron 20.0%
!! TTACAAAATGAAAACTTCAA+TGG - Chr8:34927162-34927181 None:intergenic 20.0%
!! TTAGCAAAAAATCACAATTA+GGG - Chr8:34926877-34926896 None:intergenic 20.0%
!!! GTTTTAGTTTGGTTTTTATT+TGG + Chr8:34927023-34927042 MsG0880044058.01.T01:CDS 20.0%
!!! TTGTTTTTTAAAATGGTTCA+TGG + Chr8:34927216-34927235 MsG0880044058.01.T01:three_prime_UTR 20.0%
! AAAAGTTATCACAACTAGTA+TGG + Chr8:34927180-34927199 MsG0880044058.01.T01:three_prime_UTR 25.0%
! GAAATGAGTCAAATTGATTA+TGG + Chr8:34926239-34926258 MsG0880044058.01.T01:intron 25.0%
! GACAAATAATAAAATTGTGG+GGG + Chr8:34926844-34926863 MsG0880044058.01.T01:intron 25.0%
! GGGATATAACATAACATTAA+AGG + Chr8:34926355-34926374 MsG0880044058.01.T01:intron 25.0%
! TAACATAGAAAAACTTTACC+AGG - Chr8:34926194-34926213 None:intergenic 25.0%
!!! TGGGATTTTTTTTTAGTAGT+CGG + Chr8:34926259-34926278 MsG0880044058.01.T01:intron 25.0%
AAAAGAGAACAATCTTCAAG+GGG - Chr8:34927117-34927136 None:intergenic 30.0%
AGAAAAGAGAACAATCTTCA+AGG - Chr8:34927119-34927138 None:intergenic 30.0%
AGAAAAGAGAAGAGATTGAT+TGG + Chr8:34926978-34926997 MsG0880044058.01.T01:CDS 30.0%
GAAAAGAGAACAATCTTCAA+GGG - Chr8:34927118-34927137 None:intergenic 30.0%
! GTTTAGACGTTTTGTCTATT+GGG + Chr8:34927000-34927019 MsG0880044058.01.T01:CDS 30.0%
! TGAAGATTGTTCTCTTTTCT+TGG + Chr8:34927119-34927138 MsG0880044058.01.T01:three_prime_UTR 30.0%
! TTTAGACGTTTTGTCTATTG+GGG + Chr8:34927001-34927020 MsG0880044058.01.T01:CDS 30.0%
!! TTTTTATTTGGTTATGCTGC+TGG + Chr8:34927035-34927054 MsG0880044058.01.T01:CDS 30.0%
!!! GGATTTTTTTTTAGTAGTCG+GGG + Chr8:34926261-34926280 MsG0880044058.01.T01:intron 30.0%
!!! GGGATTTTTTTTTAGTAGTC+GGG + Chr8:34926260-34926279 MsG0880044058.01.T01:intron 30.0%
AAAGAGAACAATCTTCAAGG+GGG - Chr8:34927116-34927135 None:intergenic 35.0%
ACATTTAGAGATATTGGCAG+GGG - Chr8:34926171-34926190 None:intergenic 35.0%
ACCAGGACATTTAGAGATAT+TGG - Chr8:34926177-34926196 None:intergenic 35.0%
AGATCGTAATGATCCTGATT+TGG + Chr8:34926091-34926110 MsG0880044058.01.T01:CDS 35.0%
ATAACTATACCACCCAAATC+AGG - Chr8:34926107-34926126 None:intergenic 35.0%
GACATTTAGAGATATTGGCA+GGG - Chr8:34926172-34926191 None:intergenic 35.0%
GATCGTAATGATCCTGATTT+GGG + Chr8:34926092-34926111 MsG0880044058.01.T01:CDS 35.0%
TTTCCTTCACCTTCAACATA+GGG - Chr8:34925993-34926012 None:intergenic 35.0%
! AGAGTGTCATTCATGTTATG+TGG + Chr8:34926899-34926918 MsG0880044058.01.T01:intron 35.0%
! GGTTTAGACGTTTTGTCTAT+TGG + Chr8:34926999-34927018 MsG0880044058.01.T01:CDS 35.0%
! TGTGCATTCTTGTTTGTCTT+TGG - Chr8:34925940-34925959 None:intergenic 35.0%
! TTTTCCTTCACCTTCAACAT+AGG - Chr8:34925994-34926013 None:intergenic 35.0%
!!! TGTCTATTGGGGTTTTAGTT+TGG + Chr8:34927012-34927031 MsG0880044058.01.T01:CDS 35.0%
AAGCGAAGTTTCATACCTGA+TGG - Chr8:34926502-34926521 None:intergenic 40.0%
AAGCTCAAGAGAACTGATCA+TGG + Chr8:34926334-34926353 MsG0880044058.01.T01:intron 40.0%
AATGCACAGCTCAATTGACA+GGG + Chr8:34925952-34925971 MsG0880044058.01.T01:CDS 40.0%
AGCACTTGGACTAATATTGC+TGG - Chr8:34926470-34926489 None:intergenic 40.0%
AGCTCAAGAGAACTGATCAT+GGG + Chr8:34926335-34926354 MsG0880044058.01.T01:intron 40.0%
GCCAATATCTCTAAATGTCC+TGG + Chr8:34926173-34926192 MsG0880044058.01.T01:CDS 40.0%
GGACATTTAGAGATATTGGC+AGG - Chr8:34926173-34926192 None:intergenic 40.0%
TCATGGACACTTGTTTAGTG+AGG + Chr8:34927233-34927252 MsG0880044058.01.T01:three_prime_UTR 40.0%
TCATGTTATGTGGCTGTAGA+TGG + Chr8:34926909-34926928 MsG0880044058.01.T01:intron 40.0%
TCTCTTGAGCTTAACTCAGT+TGG - Chr8:34926326-34926345 None:intergenic 40.0%
TCTGTGTAGTACTTCTTGCT+TGG - Chr8:34926944-34926963 None:intergenic 40.0%
TTCCTTCACCTTCAACATAG+GGG - Chr8:34925992-34926011 None:intergenic 40.0%
TTGAGACCATCACAACAATC+TGG - Chr8:34926026-34926045 None:intergenic 40.0%
!! AGTTTCATACCTGATGGACT+AGG - Chr8:34926496-34926515 None:intergenic 40.0%
AACTTGAGCCTCAGCTGATT+TGG - Chr8:34926425-34926444 None:intergenic 45.0%
GAATGCACAGCTCAATTGAC+AGG + Chr8:34925951-34925970 MsG0880044058.01.T01:CDS 45.0%
TAGTAGTCGGGGTTTGAACT+CGG + Chr8:34926272-34926291 MsG0880044058.01.T01:intron 45.0%
TCATGTCTCCCCTATGTTGA+AGG + Chr8:34925981-34926000 MsG0880044058.01.T01:CDS 45.0%
TGAATTAGAGCTGCTGCACA+TGG + Chr8:34926396-34926415 MsG0880044058.01.T01:intron 45.0%
! ACTTGAGCCTCAGCTGATTT+GGG - Chr8:34926424-34926443 None:intergenic 45.0%
!! CGTAATGATCCTGATTTGGG+TGG + Chr8:34926095-34926114 MsG0880044058.01.T01:CDS 45.0%
!! TCTTCAAGGGGGAAAGTGTT+TGG - Chr8:34927105-34927124 None:intergenic 45.0%
!!! ATATAAAACAATTTTATAAT+AGG - Chr8:34926632-34926651 None:intergenic 5.0%
CATGGATCCCAAATCAGCTG+AGG + Chr8:34926414-34926433 MsG0880044058.01.T01:CDS 50.0%
CCAGCACCAGATTGTTGTGA+TGG + Chr8:34926017-34926036 MsG0880044058.01.T01:CDS 50.0%
CCATCACAACAATCTGGTGC+TGG - Chr8:34926020-34926039 None:intergenic 50.0%
CTCCCCTATGTTGAAGGTGA+AGG + Chr8:34925987-34926006 MsG0880044058.01.T01:CDS 50.0%
!! GCAGGGGCATTACAAACTGT+TGG - Chr8:34926155-34926174 None:intergenic 50.0%
AGTGCTGCACCTAGTCCATC+AGG + Chr8:34926484-34926503 MsG0880044058.01.T01:CDS 55.0%
!! GATGGACTAGGTGCAGCACT+TGG - Chr8:34926484-34926503 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr8 gene 34925924 34927271 34925924 ID=MsG0880044058.01;Name=MsG0880044058.01
Chr8 mRNA 34925924 34927271 34925924 ID=MsG0880044058.01.T01;Parent=MsG0880044058.01;Name=MsG0880044058.01.T01;_AED=0.30;_eAED=0.30;_QI=0|0.5|0.33|1|1|1|3|198|172
Chr8 exon 34926928 34927271 34926928 ID=MsG0880044058.01.T01:exon:3605;Parent=MsG0880044058.01.T01
Chr8 exon 34926404 34926505 34926404 ID=MsG0880044058.01.T01:exon:3604;Parent=MsG0880044058.01.T01
Chr8 exon 34925924 34926194 34925924 ID=MsG0880044058.01.T01:exon:3603;Parent=MsG0880044058.01.T01
Chr8 CDS 34925924 34926194 34925924 ID=MsG0880044058.01.T01:cds;Parent=MsG0880044058.01.T01
Chr8 CDS 34926404 34926505 34926404 ID=MsG0880044058.01.T01:cds;Parent=MsG0880044058.01.T01
Chr8 CDS 34926928 34927073 34926928 ID=MsG0880044058.01.T01:cds;Parent=MsG0880044058.01.T01
Chr8 three_prime_UTR 34927074 34927271 34927074 ID=MsG0880044058.01.T01:three_prime_utr;Parent=MsG0880044058.01.T01
Gene Sequence

>MsG0880044058.01.T01

ATGTCAGATTCATCCAAAGACAAACAAGAATGCACAGCTCAATTGACAGGGCTAGCATCATGTCTCCCCTATGTTGAAGGTGAAGGAAAAACTCCAGCACCAGATTGTTGTGATGGTCTCAAGACACTTCTGAAAACAAACAAAAAATGTTTGTGTGTAATTATCAAAGATCGTAATGATCCTGATTTGGGTGGTATAGTTATTAATGTTACTTTGGCTTTGAATCTTCCAACAGTTTGTAATGCCCCTGCCAATATCTCTAAATGTCCTGAGCTGCTGCACATGGATCCCAAATCAGCTGAGGCTCAAGTTTTTTATCAATTAAACAATGGCTCCAGCAATATTAGTCCAAGTGCTGCACCTAGTCCATCAGATGGAGCAAGCAACCAAGCAAGAAGTACTACACAGAAGAATGATGCATTCAGAAAAGAGAAGAGATTGATTGGTTTAGACGTTTTGTCTATTGGGGTTTTAGTTTGGTTTTTATTTGGTTATGCTGCTGGAAACTTTTTCATTTGA

Protein sequence

>MsG0880044058.01.T01

MSDSSKDKQECTAQLTGLASCLPYVEGEGKTPAPDCCDGLKTLLKTNKKCLCVIIKDRNDPDLGGIVINVTLALNLPTVCNAPANISKCPELLHMDPKSAEAQVFYQLNNGSSNISPSAAPSPSDGASNQARSTTQKNDAFRKEKRLIGLDVLSIGVLVWFLFGYAAGNFFI*