AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580025026.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580025026.01.T01 MTR_5g021090 57.862 159 4 2 1 126 1 129 1.40e-51 159
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580025026.01.T01 AT1G77370 36.842 152 33 2 8 126 9 130 3.28e-21 82.8
MsG0580025026.01.T01 AT1G77370 46.591 88 17 1 24 111 25 82 1.03e-18 77.0

Find 26 sgRNAs with CRISPR-Local

Find 102 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGTTCCATTCTCAAACAAAA+AGG 0.217348 5:-12951262 MsG0580025025.01.T01:intron
ATTTCGTTGTCATTGTTAAT+TGG 0.231844 5:+12953290 MsG0580025026.01.T01:three_prime_UTR
TTCAATTATTATCACGTGTT+AGG 0.246082 5:+12951394 MsG0580025026.01.T01:CDS
TACGTACGGGCAATAGGATT+TGG 0.352701 5:-12951352 MsG0580025025.01.T01:intron
TATATATACGTACGGGCAAT+AGG 0.386425 5:-12951358 MsG0580025025.01.T01:intron
TCAATTATTATCACGTGTTA+GGG 0.406168 5:+12951395 MsG0580025026.01.T01:CDS
GGAAACTGAATTTGAAGCTT+CGG 0.429054 5:-12951283 MsG0580025025.01.T01:intron
AGCAGTGGAGCTCTAATTGT+TGG 0.456983 5:+12953262 MsG0580025026.01.T01:three_prime_UTR
ATCTATAATTTGTATGAATG+TGG 0.490361 5:+12953065 MsG0580025026.01.T01:three_prime_UTR
TCTATAATTTGTATGAATGT+GGG 0.491540 5:+12953066 MsG0580025026.01.T01:three_prime_UTR
AAATCAAGCTCAACAACAAA+AGG 0.509148 5:-12951504 MsG0580025025.01.T01:intron
AAGAGAGTTATATATACGTA+CGG 0.512497 5:-12951366 MsG0580025025.01.T01:intron
GGAGAAGATGGTGATTCTGT+TGG 0.515760 5:-12951331 MsG0580025025.01.T01:intron
GCAATAGGATTTGGAGAAGA+TGG 0.516584 5:-12951343 MsG0580025025.01.T01:intron
GTTTCTGCAATTCACCACTC+TGG 0.562376 5:-12952996 MsG0580025025.01.T01:intron
CTTCGATATACATGAAAATG+CGG 0.575457 5:-12953093 MsG0580025025.01.T01:intron
CTATAATTTGTATGAATGTG+GGG 0.594049 5:+12953067 MsG0580025026.01.T01:three_prime_UTR
TTCGATATACATGAAAATGC+GGG 0.595061 5:-12953092 MsG0580025025.01.T01:intron
CGAAGGTTTCAAGCTTCTAG+CGG 0.615435 5:+12953111 MsG0580025026.01.T01:three_prime_UTR
AGAGAGTTATATATACGTAC+GGG 0.615867 5:-12951365 MsG0580025025.01.T01:intron
TGATTGTATACTTGAGACTG+AGG 0.636878 5:+12953033 MsG0580025026.01.T01:exon
GAAAGTACGATCATGAGCAG+TGG 0.651793 5:+12953247 MsG0580025026.01.T01:three_prime_UTR
GTTGTTGAGCTTGATTTGCG+AGG 0.668245 5:+12951510 MsG0580025026.01.T01:CDS
CTCAGTGCTGCAGTCCAGAG+TGG 0.673667 5:+12952982 MsG0580025026.01.T01:CDS
CAAGAATGAAGATGTTACAG+TGG 0.675980 5:+12951202 None:intergenic
TAACGTGAGAGTTATGAACA+TGG 0.716381 5:-12951226 MsG0580025025.01.T01:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATCTATATGTCATTATAAA+AGG + Chr5:12952895-12952914 MsG0580025026.01.T01:intron 15.0%
!!! AAGGGAATATTTATTATTTT+CGG - Chr5:12952723-12952742 MsG0580025025.01.T01:intron 15.0%
!!! AATACTTTTTCATGTTTTTT+AGG + Chr5:12953137-12953156 MsG0580025026.01.T01:three_prime_UTR 15.0%
!!! TATGTGTTTTGATATTTTTA+AGG + Chr5:12951722-12951741 MsG0580025026.01.T01:intron 15.0%
!!! TTTTTTTCCATATACTTTAA+AGG + Chr5:12952813-12952832 MsG0580025026.01.T01:intron 15.0%
!! AAATAACCTATATACATAAG+AGG - Chr5:12951819-12951838 MsG0580025025.01.T01:intron 20.0%
!! AATAACCTATATACATAAGA+GGG - Chr5:12951818-12951837 MsG0580025025.01.T01:intron 20.0%
!! ATTAAGATGTTTATCAAACA+AGG - Chr5:12951579-12951598 MsG0580025025.01.T01:intron 20.0%
!! CTCTATATCCAAAAATATAA+GGG + Chr5:12952637-12952656 MsG0580025026.01.T01:intron 20.0%
!! TAAAAAAAAAACTGCTTTCA+TGG + Chr5:12951920-12951939 MsG0580025026.01.T01:intron 20.0%
!! TAAACTATATGAAAATAACG+AGG + Chr5:12952584-12952603 MsG0580025026.01.T01:intron 20.0%
!! TATGTCATTATAAAAGGTTA+AGG + Chr5:12952901-12952920 MsG0580025026.01.T01:intron 20.0%
!! TCATATAGTTTAAGAACTAA+AGG - Chr5:12952576-12952595 MsG0580025025.01.T01:intron 20.0%
!!! AATTGTAGTTTTCAATAATC+TGG + Chr5:12953318-12953337 MsG0580025026.01.T01:three_prime_UTR 20.0%
!!! ATCTATAATTTGTATGAATG+TGG + Chr5:12953065-12953084 MsG0580025026.01.T01:three_prime_UTR 20.0%
!!! ATGTTTTCATTTTGTTCTAT+AGG + Chr5:12953225-12953244 MsG0580025026.01.T01:three_prime_UTR 20.0%
!!! ATGTTTTTTAGGTATTTACT+AGG + Chr5:12953148-12953167 MsG0580025026.01.T01:three_prime_UTR 20.0%
!!! CTTATATTTTTGGATATAGA+GGG - Chr5:12952638-12952657 MsG0580025025.01.T01:intron 20.0%
!!! TATTTAGCCTTTAAAGTATA+TGG - Chr5:12952823-12952842 MsG0580025025.01.T01:intron 20.0%
!!! TCTATAATTTGTATGAATGT+GGG + Chr5:12953066-12953085 MsG0580025026.01.T01:three_prime_UTR 20.0%
!!! TGATAGAAATTTTTTATGAG+AGG + Chr5:12952689-12952708 MsG0580025026.01.T01:intron 20.0%
! AAGAGAGTTATATATACGTA+CGG - Chr5:12951369-12951388 MsG0580025025.01.T01:intron 25.0%
! AATGATAACAGTTGTCTATT+TGG - Chr5:12952053-12952072 MsG0580025025.01.T01:intron 25.0%
! ATTCAAATAGTATACTCAGT+CGG - Chr5:12951782-12951801 MsG0580025025.01.T01:intron 25.0%
! ATTTCGTTGTCATTGTTAAT+TGG + Chr5:12953290-12953309 MsG0580025026.01.T01:three_prime_UTR 25.0%
! CCTCTATATCCAAAAATATA+AGG + Chr5:12952636-12952655 MsG0580025026.01.T01:intron 25.0%
! GTTTAATTAATATGCTCTGT+CGG + Chr5:12951632-12951651 MsG0580025026.01.T01:intron 25.0%
! TAATGAAGGGATTAAATTGA+AGG + Chr5:12952856-12952875 MsG0580025026.01.T01:intron 25.0%
! TATATCCAAAAATATAAGGG+TGG + Chr5:12952640-12952659 MsG0580025026.01.T01:intron 25.0%
! TATGAAAATAACGAGGAATT+TGG + Chr5:12952591-12952610 MsG0580025026.01.T01:intron 25.0%
! TCAATTATTATCACGTGTTA+GGG + Chr5:12951395-12951414 MsG0580025026.01.T01:CDS 25.0%
! TTCAATTATTATCACGTGTT+AGG + Chr5:12951394-12951413 MsG0580025026.01.T01:CDS 25.0%
!! AATATTTCTCTGATTTTCGT+AGG + Chr5:12951436-12951455 MsG0580025026.01.T01:CDS 25.0%
!! ACAAATTTTCACATACTCAA+GGG - Chr5:12952741-12952760 MsG0580025025.01.T01:intron 25.0%
!! ATACTTTAAAGGCTAAATAG+AGG + Chr5:12952824-12952843 MsG0580025026.01.T01:intron 25.0%
!! CTATAATTTGTATGAATGTG+GGG + Chr5:12953067-12953086 MsG0580025026.01.T01:three_prime_UTR 25.0%
!! TTAAGTTGTTTATCCAAACA+AGG - Chr5:12952322-12952341 MsG0580025025.01.T01:intron 25.0%
!! TTTTCATAAGTGTTTATGTC+AGG + Chr5:12952005-12952024 MsG0580025026.01.T01:intron 25.0%
!!! CCTTATATTTTTGGATATAG+AGG - Chr5:12952639-12952658 MsG0580025025.01.T01:intron 25.0%
AAATCAAGCTCAACAACAAA+AGG - Chr5:12951507-12951526 MsG0580025025.01.T01:intron 30.0%
AGAGAGTTATATATACGTAC+GGG - Chr5:12951368-12951387 MsG0580025025.01.T01:intron 30.0%
ATGAGCAAACTTTGTAAGAA+TGG - Chr5:12952948-12952967 MsG0580025025.01.T01:intron 30.0%
CATTAGTACTTAAGATGCTA+GGG - Chr5:12952773-12952792 MsG0580025025.01.T01:intron 30.0%
CTCAAACAAAAAGGGTAAAA+CGG - Chr5:12951256-12951275 MsG0580025025.01.T01:intron 30.0%
CTTAAGTACTAATGAGACAA+GGG + Chr5:12952779-12952798 MsG0580025026.01.T01:intron 30.0%
CTTCGATATACATGAAAATG+CGG - Chr5:12953096-12953115 MsG0580025025.01.T01:intron 30.0%
GTTCCATTCTCAAACAAAAA+GGG - Chr5:12951264-12951283 MsG0580025025.01.T01:intron 30.0%
TAACAGTTGTCTATTTGGAT+TGG - Chr5:12952048-12952067 MsG0580025025.01.T01:intron 30.0%
TCATTAGTACTTAAGATGCT+AGG - Chr5:12952774-12952793 MsG0580025025.01.T01:intron 30.0%
TCTTAAGTACTAATGAGACA+AGG + Chr5:12952778-12952797 MsG0580025026.01.T01:intron 30.0%
TGATACCCTCTTATGTATAT+AGG + Chr5:12951810-12951829 MsG0580025026.01.T01:intron 30.0%
TTAAGTACTAATGAGACAAG+GGG + Chr5:12952780-12952799 MsG0580025026.01.T01:intron 30.0%
TTCGATATACATGAAAATGC+GGG - Chr5:12953095-12953114 MsG0580025025.01.T01:intron 30.0%
TTTCATACTTAGTCCTTGTT+TGG + Chr5:12952306-12952325 MsG0580025026.01.T01:intron 30.0%
TTTGTGCTTGTTTAGATGAT+GGG + Chr5:12952105-12952124 MsG0580025026.01.T01:intron 30.0%
! ACTTTCCACCCTTATATTTT+TGG - Chr5:12952648-12952667 MsG0580025025.01.T01:intron 30.0%
! AGAGGAGATAATGATAATGA+AGG + Chr5:12952842-12952861 MsG0580025026.01.T01:intron 30.0%
! GACAAATTTTCACATACTCA+AGG - Chr5:12952742-12952761 MsG0580025025.01.T01:intron 30.0%
! GAGGAGATAATGATAATGAA+GGG + Chr5:12952843-12952862 MsG0580025026.01.T01:intron 30.0%
! TTTTGTGCTTGTTTAGATGA+TGG + Chr5:12952104-12952123 MsG0580025026.01.T01:intron 30.0%
!! TATATACATAAGAGGGTATC+AGG - Chr5:12951811-12951830 MsG0580025025.01.T01:intron 30.0%
!! TCTTAGACTTTTGCTTTTCT+GGG + Chr5:12952232-12952251 MsG0580025026.01.T01:intron 30.0%
!! TTACCCTTTTTGTTTGAGAA+TGG + Chr5:12951258-12951277 MsG0580025026.01.T01:CDS 30.0%
!! TTCTTAGACTTTTGCTTTTC+TGG + Chr5:12952231-12952250 MsG0580025026.01.T01:intron 30.0%
ATGGATAGAGAAACACAAAG+AGG - Chr5:12952929-12952948 MsG0580025025.01.T01:intron 35.0%
GGTTCCATTCTCAAACAAAA+AGG - Chr5:12951265-12951284 MsG0580025025.01.T01:intron 35.0%
TAACGAGACAACACAATCAT+CGG - Chr5:12951681-12951700 MsG0580025025.01.T01:intron 35.0%
TAACGTGAGAGTTATGAACA+TGG - Chr5:12951229-12951248 MsG0580025025.01.T01:intron 35.0%
TATATATACGTACGGGCAAT+AGG - Chr5:12951361-12951380 MsG0580025025.01.T01:intron 35.0%
TGATTGTATACTTGAGACTG+AGG + Chr5:12953033-12953052 MsG0580025026.01.T01:exon 35.0%
TGGATAGAGAAACACAAAGA+GGG - Chr5:12952928-12952947 MsG0580025025.01.T01:intron 35.0%
TTAAGATGCTAGGGATTAAC+AGG - Chr5:12952764-12952783 MsG0580025025.01.T01:intron 35.0%
! ATTGTTTTCGCGTAAGCTAT+AGG + Chr5:12951855-12951874 MsG0580025026.01.T01:intron 35.0%
! CGCATTTTCATGTATATCGA+AGG + Chr5:12953094-12953113 MsG0580025026.01.T01:three_prime_UTR 35.0%
! GGAAACTGAATTTGAAGCTT+CGG - Chr5:12951286-12951305 MsG0580025025.01.T01:intron 35.0%
! TTTGTCTATGGGAAGCATAT+TGG + Chr5:12952185-12952204 MsG0580025026.01.T01:intron 35.0%
!! AGATGATGGGTATCAAATTC+AGG + Chr5:12952118-12952137 MsG0580025026.01.T01:intron 35.0%
!! GATGATGGGTATCAAATTCA+GGG + Chr5:12952119-12952138 MsG0580025026.01.T01:intron 35.0%
!! GATTGCGTTTTGAACAAAAG+CGG - Chr5:12951307-12951326 MsG0580025025.01.T01:intron 35.0%
!!! ACATGTACTTTTAGCTTGTC+TGG + Chr5:12953177-12953196 MsG0580025026.01.T01:three_prime_UTR 35.0%
GCAATAGGATTTGGAGAAGA+TGG - Chr5:12951346-12951365 MsG0580025025.01.T01:intron 40.0%
GGTGTTCTTCTGGATTTGAT+TGG + Chr5:12952140-12952159 MsG0580025026.01.T01:intron 40.0%
GTGGAAAGTGAGAGAAGATA+GGG + Chr5:12952659-12952678 MsG0580025026.01.T01:intron 40.0%
TCCCACAAGTGTTTGTCTAT+GGG + Chr5:12952174-12952193 MsG0580025026.01.T01:intron 40.0%
TCCCATAGACAAACACTTGT+GGG - Chr5:12952178-12952197 MsG0580025025.01.T01:intron 40.0%
TTCCCATAGACAAACACTTG+TGG - Chr5:12952179-12952198 MsG0580025025.01.T01:intron 40.0%
! AAGCATATTGGTGGATCAGA+TGG + Chr5:12952197-12952216 MsG0580025026.01.T01:intron 40.0%
! TCAAATTCAGGGTGTTCTTC+TGG + Chr5:12952130-12952149 MsG0580025026.01.T01:intron 40.0%
ACTGCTTTCATGGTCTGTCA+TGG + Chr5:12951930-12951949 MsG0580025026.01.T01:intron 45.0%
AGGGATGCATGTTTGAGAGA+GGG - Chr5:12952619-12952638 MsG0580025025.01.T01:intron 45.0%
CGAAGGTTTCAAGCTTCTAG+CGG + Chr5:12953111-12953130 MsG0580025026.01.T01:three_prime_UTR 45.0%
GGAGAAGATGGTGATTCTGT+TGG - Chr5:12951334-12951353 MsG0580025025.01.T01:intron 45.0%
GGTGGAAAGTGAGAGAAGAT+AGG + Chr5:12952658-12952677 MsG0580025026.01.T01:intron 45.0%
GTCCCACAAGTGTTTGTCTA+TGG + Chr5:12952173-12952192 MsG0580025026.01.T01:intron 45.0%
GTTTCTGCAATTCACCACTC+TGG - Chr5:12952999-12953018 MsG0580025025.01.T01:intron 45.0%
TACGTACGGGCAATAGGATT+TGG - Chr5:12951355-12951374 MsG0580025025.01.T01:intron 45.0%
! AGCAGTGGAGCTCTAATTGT+TGG + Chr5:12953262-12953281 MsG0580025026.01.T01:three_prime_UTR 45.0%
! GAAAGTACGATCATGAGCAG+TGG + Chr5:12953247-12953266 MsG0580025026.01.T01:three_prime_UTR 45.0%
! GTCTATGGGAAGCATATTGG+TGG + Chr5:12952188-12952207 MsG0580025026.01.T01:intron 45.0%
!! GTTGTTGAGCTTGATTTGCG+AGG + Chr5:12951510-12951529 MsG0580025026.01.T01:CDS 45.0%
GAGGGATGCATGTTTGAGAG+AGG - Chr5:12952620-12952639 MsG0580025025.01.T01:intron 50.0%
CTCAGTGCTGCAGTCCAGAG+TGG + Chr5:12952982-12953001 MsG0580025026.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr5 gene 12951207 12953418 12951207 ID=MsG0580025026.01;Name=MsG0580025026.01
Chr5 mRNA 12951207 12953418 12951207 ID=MsG0580025026.01.T01;Parent=MsG0580025026.01;Name=MsG0580025026.01.T01;_AED=0.50;_eAED=0.55;_QI=0|0|0.5|1|0|0|2|383|126
Chr5 exon 12951207 12951531 12951207 ID=MsG0580025026.01.T01:exon:20204;Parent=MsG0580025026.01.T01
Chr5 exon 12952980 12953418 12952980 ID=MsG0580025026.01.T01:exon:20205;Parent=MsG0580025026.01.T01
Chr5 CDS 12951207 12951531 12951207 ID=MsG0580025026.01.T01:cds;Parent=MsG0580025026.01.T01
Chr5 CDS 12952980 12953035 12952980 ID=MsG0580025026.01.T01:cds;Parent=MsG0580025026.01.T01
Chr5 three_prime_UTR 12953036 12953418 12953036 ID=MsG0580025026.01.T01:three_prime_utr;Parent=MsG0580025026.01.T01
Gene Sequence

>MsG0580025026.01.T01

ATGAAGATGTTACAGTGGACCATGTTCATAACTCTCACGTTATTGACCGTTTTACCCTTTTTGTTTGAGAATGGAACCGAAGCTTCAAATTCAGTTTCCGCTTTTGTTCAAAACGCAATCTACTCCAACAGAATCACCATCTTCTCCAAATCCTATTGCCCGTACGTATATATAACTCTCTTCAAATTTCAATTATTATCACGTGTTAGGGTTTGTTCAATTTCATCACAATATTTCTCTGATTTTCGTAGGTATTGTTTACGTGCTAAACGTGTTTTTGTTGAACTAAATGAGCAACCTTTTGTTGTTGAGCTTGATTTGCGAGATCTCAGTGCTGCAGTCCAGAGTGGTGAATTGCAGAAACTTCTCAAATCAAGTTGA

Protein sequence

>MsG0580025026.01.T01

MKMLQWTMFITLTLLTVLPFLFENGTEASNSVSAFVQNAIYSNRITIFSKSYCPYVYITLFKFQLLSRVRVCSISSQYFSDFRRYCLRAKRVFVELNEQPFVVELDLRDLSAAVQSGELQKLLKSS*