AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880046969.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880046969.01.T01 MTR_4g118355 94.904 157 8 0 10 166 136 292 7.38e-109 312
MsG0880046969.01.T02 MTR_4g118355 94.904 157 8 0 10 166 136 292 7.38e-109 312
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880046969.01.T01 AT4G15530 82.803 157 27 0 10 166 697 853 2.37e-90 281
MsG0880046969.01.T01 AT4G15530 82.803 157 27 0 10 166 697 853 2.37e-90 281
MsG0880046969.01.T01 AT4G15530 82.803 157 27 0 10 166 715 871 4.02e-90 281
MsG0880046969.01.T01 AT4G15530 82.803 157 27 0 10 166 796 952 1.18e-89 281
MsG0880046969.01.T01 AT4G15530 82.803 157 27 0 10 166 796 952 1.18e-89 281
MsG0880046969.01.T01 AT4G15530 82.803 157 27 0 10 166 803 959 1.23e-89 281
MsG0880046969.01.T01 AT4G15530 82.803 157 27 0 10 166 803 959 1.23e-89 281
MsG0880046969.01.T02 AT4G15530 82.803 157 27 0 10 166 697 853 2.37e-90 281
MsG0880046969.01.T02 AT4G15530 82.803 157 27 0 10 166 697 853 2.37e-90 281
MsG0880046969.01.T02 AT4G15530 82.803 157 27 0 10 166 715 871 4.02e-90 281
MsG0880046969.01.T02 AT4G15530 82.803 157 27 0 10 166 796 952 1.18e-89 281
MsG0880046969.01.T02 AT4G15530 82.803 157 27 0 10 166 796 952 1.18e-89 281
MsG0880046969.01.T02 AT4G15530 82.803 157 27 0 10 166 803 959 1.23e-89 281
MsG0880046969.01.T02 AT4G15530 82.803 157 27 0 10 166 803 959 1.23e-89 281

Find 13 sgRNAs with CRISPR-Local

Find 91 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATACCGTGTCTTGGTGTATT+TGG 0.297849 8:+80512762 MsG0880046969.01.T02:three_prime_UTR
ACTGGTGTGGAATTATATAT+AGG 0.448324 8:+80512795 MsG0880046969.01.T02:three_prime_UTR
TATTATACTGTTTCTGTCAA+GGG 0.486470 8:+80512473 MsG0880046969.01.T01:three_prime_UTR
TTATTATACTGTTTCTGTCA+AGG 0.492636 8:+80512472 MsG0880046969.01.T01:three_prime_UTR
TTTGATTGCATACCGTGTCT+TGG 0.522782 8:+80512753 MsG0880046969.01.T02:three_prime_UTR
GCAGCTCAATTTGCAGCGTA+AGG 0.540463 8:+80512444 MsG0880046969.01.T01:CDS
GCTGCTGCAAGTCTAGCAAT+CGG 0.570121 8:-80512426 None:intergenic
CTTGATAGAAAATAAAGCAA+AGG 0.605614 8:+80512605 MsG0880046969.01.T01:intron
ATATAAAGTCTGATAAAGCA+AGG 0.608659 8:+80512571 MsG0880046969.01.T01:intron
TCAATTTGCAGCGTAAGGAA+CGG 0.609021 8:+80512449 MsG0880046969.01.T01:exon
GTATTTGGTGTATAAGACAC+TGG 0.631881 8:+80512777 MsG0880046969.01.T02:three_prime_UTR
ACACCAAATACACCAAGACA+CGG 0.726623 8:-80512765 None:intergenic
TGGTGTATAAGACACTGGTG+TGG 0.743788 8:+80512782 MsG0880046969.01.T02:three_prime_UTR

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATCATTAATAAAAAAAATGA+AGG + Chr8:80512545-80512564 MsG0880046969.01.T01:intron 10.0%
!!! CATTTTTTTTATTAATGATA+TGG - Chr8:80512544-80512563 None:intergenic 10.0%
!! TAAAATAATGTTGAAAGTAA+TGG - Chr8:80511880-80511899 None:intergenic 15.0%
!!! AAATATTGTACATGTTTTAT+TGG + Chr8:80512836-80512855 MsG0880046969.01.T02:three_prime_UTR 15.0%
!! AATCAATGAATTTGATTATC+AGG + Chr8:80512167-80512186 MsG0880046969.01.T01:intron 20.0%
!! ACTTTATAAAATGACTTTAG+AGG + Chr8:80511814-80511833 MsG0880046969.01.T01:intron 20.0%
!!! ACTTTGAATTTTATATGCAA+AGG - Chr8:80512651-80512670 None:intergenic 20.0%
!!! ATTTTACCTATTTGCTAAAT+CGG + Chr8:80511894-80511913 MsG0880046969.01.T01:intron 20.0%
!!! ATTTTTATTATTATGTGTCC+TGG - Chr8:80511734-80511753 None:intergenic 20.0%
!!! CTAAAGTCATTTTATAAAGT+CGG - Chr8:80511814-80511833 None:intergenic 20.0%
!!! TTTGTTGTTTAAATTTGCAT+TGG - Chr8:80512079-80512098 None:intergenic 20.0%
!!! TTTTTATTATTATGTGTCCT+GGG - Chr8:80511733-80511752 None:intergenic 20.0%
! AATGAATTTGATTATCAGGT+TGG + Chr8:80512171-80512190 MsG0880046969.01.T01:intron 25.0%
! ATATAAAGTCTGATAAAGCA+AGG + Chr8:80512571-80512590 MsG0880046969.01.T01:intron 25.0%
! ATCAAAATTTGCACAGAAAA+GGG + Chr8:80512020-80512039 MsG0880046969.01.T01:CDS 25.0%
! ATTATGGTGATAAAACACTT+CGG + Chr8:80512135-80512154 MsG0880046969.01.T01:intron 25.0%
! CTTGATAGAAAATAAAGCAA+AGG + Chr8:80512605-80512624 MsG0880046969.01.T01:intron 25.0%
! TTAGTCAAACTGAAAATTTG+AGG + Chr8:80512387-80512406 MsG0880046969.01.T01:intron 25.0%
!! TAAAATTAGAAAGTGCAAAG+AGG - Chr8:80511498-80511517 None:intergenic 25.0%
!! TGCGTTAGCTTAATATATAA+AGG + Chr8:80511930-80511949 MsG0880046969.01.T01:intron 25.0%
!!! TATTATACTGTTTCTGTCAA+GGG + Chr8:80512473-80512492 MsG0880046969.01.T01:three_prime_UTR 25.0%
!!! TTATTATACTGTTTCTGTCA+AGG + Chr8:80512472-80512491 MsG0880046969.01.T01:three_prime_UTR 25.0%
AAATTATTGACAACAACTGC+AGG + Chr8:80511968-80511987 MsG0880046969.01.T01:intron 30.0%
ACTGGTGTGGAATTATATAT+AGG + Chr8:80512795-80512814 MsG0880046969.01.T02:three_prime_UTR 30.0%
CATCAAAATTTGCACAGAAA+AGG + Chr8:80512019-80512038 MsG0880046969.01.T01:CDS 30.0%
GACATCAAGTGAGTTTAATA+AGG + Chr8:80511284-80511303 MsG0880046969.01.T01:CDS 30.0%
GGTTCCAAATGAAAAGAAAT+CGG - Chr8:80511550-80511569 None:intergenic 30.0%
TACTGTAACCAAATGTCATT+TGG - Chr8:80511584-80511603 None:intergenic 30.0%
TCATTTGCAATCTACACAAA+TGG - Chr8:80511525-80511544 None:intergenic 30.0%
TCTTCATTAAGCTATAAGGT+TGG + Chr8:80511340-80511359 MsG0880046969.01.T01:CDS 30.0%
TGGTAAGTTACCTTCAAATT+TGG - Chr8:80512059-80512078 None:intergenic 30.0%
! ACTGTAACCAAATGTCATTT+GGG - Chr8:80511583-80511602 None:intergenic 30.0%
! TAAAATGACTTTAGAGGTGT+AGG + Chr8:80511820-80511839 MsG0880046969.01.T01:intron 30.0%
! TTAATTCCTGTCGGTTAAAA+AGG - Chr8:80511264-80511283 None:intergenic 30.0%
!! GTATAAAAAATAAAGTGCCG+TGG - Chr8:80512313-80512332 None:intergenic 30.0%
ACAACAGTATGAGAAATCAC+CGG - Chr8:80511696-80511715 None:intergenic 35.0%
ACTATGGAACTAACCTCAAA+TGG - Chr8:80511666-80511685 None:intergenic 35.0%
CTTGATGTCTTAATTCCTGT+CGG - Chr8:80511273-80511292 None:intergenic 35.0%
TCATACTAATCTGACCTGAA+TGG - Chr8:80512276-80512295 None:intergenic 35.0%
TGCTGCTAAACCAAATTTGA+AGG + Chr8:80512046-80512065 MsG0880046969.01.T01:CDS 35.0%
! AAATTTGAGGACTCTTTTGC+AGG + Chr8:80512400-80512419 MsG0880046969.01.T01:intron 35.0%
! AACCAAATGTCATTTGGGTA+AGG - Chr8:80511578-80511597 None:intergenic 35.0%
! AATTTGAGGACTCTTTTGCA+GGG + Chr8:80512401-80512420 MsG0880046969.01.T01:intron 35.0%
! CAAAATTTTGTCACGCATCT+TGG + Chr8:80512095-80512114 MsG0880046969.01.T01:intron 35.0%
! TTACCTATTTGCTAAATCGG+AGG + Chr8:80511897-80511916 MsG0880046969.01.T01:intron 35.0%
! TTTAGAGGTGTAGGATAAGT+GGG + Chr8:80511829-80511848 MsG0880046969.01.T01:intron 35.0%
!! GAAGCCGATTTCTTTTCATT+TGG + Chr8:80511543-80511562 MsG0880046969.01.T01:CDS 35.0%
!! GATTATCAGGTTGGAATATG+TGG + Chr8:80512180-80512199 MsG0880046969.01.T01:intron 35.0%
!! GTATTTGGTGTATAAGACAC+TGG + Chr8:80512777-80512796 MsG0880046969.01.T02:three_prime_UTR 35.0%
ACACCAAATACACCAAGACA+CGG - Chr8:80512768-80512787 None:intergenic 40.0%
ATGTCTCATGTTCACCATTC+AGG + Chr8:80512259-80512278 MsG0880046969.01.T01:CDS 40.0%
GACCTTACCCAAATGACATT+TGG + Chr8:80511573-80511592 MsG0880046969.01.T01:CDS 40.0%
GCAAAGAATGCAACAGAAGA+AGG - Chr8:80512222-80512241 None:intergenic 40.0%
GGGCTCTTCATTAAGCTATA+AGG + Chr8:80511336-80511355 MsG0880046969.01.T01:CDS 40.0%
GTTGCATTCTTTGCTCAACT+TGG + Chr8:80512228-80512247 MsG0880046969.01.T01:CDS 40.0%
TCAATTTGCAGCGTAAGGAA+CGG + Chr8:80512449-80512468 MsG0880046969.01.T01:exon 40.0%
TGATGCTCTTCAATTTGCCA+CGG + Chr8:80512293-80512312 MsG0880046969.01.T01:intron 40.0%
TTTGATTGCATACCGTGTCT+TGG + Chr8:80512753-80512772 MsG0880046969.01.T02:three_prime_UTR 40.0%
TTTGCAGCATGATCCATTTG+AGG + Chr8:80511650-80511669 MsG0880046969.01.T01:CDS 40.0%
! ATACCGTGTCTTGGTGTATT+TGG + Chr8:80512762-80512781 MsG0880046969.01.T02:three_prime_UTR 40.0%
! CTTTAGAGGTGTAGGATAAG+TGG + Chr8:80511828-80511847 MsG0880046969.01.T01:intron 40.0%
! TGTTACTCTTGTTTCATCCC+AGG + Chr8:80511713-80511732 MsG0880046969.01.T01:intron 40.0%
!! GAGAAAGTGTTCTCTGAGAT+GGG + Chr8:80511316-80511335 MsG0880046969.01.T01:CDS 40.0%
!! TGAGAAAGTGTTCTCTGAGA+TGG + Chr8:80511315-80511334 MsG0880046969.01.T01:CDS 40.0%
ATCATGCTGCAAAATCCCTG+CGG - Chr8:80511643-80511662 None:intergenic 45.0%
CCACCTCCGATTTAGCAAAT+AGG - Chr8:80511903-80511922 None:intergenic 45.0%
GTTGGAATATGTGGAGAGCA+TGG + Chr8:80512189-80512208 MsG0880046969.01.T01:CDS 45.0%
TAGTTCCATAGTCGTGTGAC+CGG + Chr8:80511674-80511693 MsG0880046969.01.T01:intron 45.0%
TGGTGTATAAGACACTGGTG+TGG + Chr8:80512782-80512801 MsG0880046969.01.T02:three_prime_UTR 45.0%
TTCCTACATACCTATCCGCA+GGG + Chr8:80511625-80511644 MsG0880046969.01.T01:CDS 45.0%
! CCTATTTGCTAAATCGGAGG+TGG + Chr8:80511900-80511919 MsG0880046969.01.T01:intron 45.0%
! CTCGATCCTTTTTAACCGAC+AGG + Chr8:80511255-80511274 MsG0880046969.01.T01:CDS 45.0%
! GTACTTGACCAGAAAGGTGT+GGG + Chr8:80511990-80512009 MsG0880046969.01.T01:CDS 45.0%
! TGTCATTTGGGTAAGGTCGT+TGG - Chr8:80511571-80511590 None:intergenic 45.0%
!! TATTCTTAATATTTATATTA+TGG + Chr8:80512119-80512138 MsG0880046969.01.T01:intron 5.0%
AATCACCGGTCACACGACTA+TGG - Chr8:80511682-80511701 None:intergenic 50.0%
AGCTGCACTAGTTGCAGATG+AGG + Chr8:80511384-80511403 MsG0880046969.01.T01:CDS 50.0%
ATCCCTGCGGATAGGTATGT+AGG - Chr8:80511630-80511649 None:intergenic 50.0%
CTGCAGGTACTTGACCAGAA+AGG + Chr8:80511984-80512003 MsG0880046969.01.T01:intron 50.0%
CTTCCTACATACCTATCCGC+AGG + Chr8:80511624-80511643 MsG0880046969.01.T01:CDS 50.0%
GCAGCTCAATTTGCAGCGTA+AGG + Chr8:80512444-80512463 MsG0880046969.01.T01:CDS 50.0%
GCTGCTGCAAGTCTAGCAAT+CGG - Chr8:80512429-80512448 None:intergenic 50.0%
GGATAAGTGGGAGCTGGAAA+TGG + Chr8:80511841-80511860 MsG0880046969.01.T01:intron 50.0%
GGTACTTGACCAGAAAGGTG+TGG + Chr8:80511989-80512008 MsG0880046969.01.T01:intron 50.0%
TCTGCAACTAGTGCAGCTCT+TGG - Chr8:80511382-80511401 None:intergenic 50.0%
! AATATGTGGAGAGCATGGCG+GGG + Chr8:80512194-80512213 MsG0880046969.01.T01:CDS 50.0%
! GAATATGTGGAGAGCATGGC+GGG + Chr8:80512193-80512212 MsG0880046969.01.T01:CDS 50.0%
! GGAATATGTGGAGAGCATGG+CGG + Chr8:80512192-80512211 MsG0880046969.01.T01:CDS 50.0%
! TGAGTTGACCCACACCTTTC+TGG - Chr8:80512001-80512020 None:intergenic 50.0%
GCTGCAAAATCCCTGCGGAT+AGG - Chr8:80511638-80511657 None:intergenic 55.0%
GGTGTAGGATAAGTGGGAGC+TGG + Chr8:80511835-80511854 MsG0880046969.01.T01:intron 55.0%
Chromosome Type Strat End Strand Name
Chr8 gene 80511247 80512892 80511247 ID=MsG0880046969.01;Name=MsG0880046969.01
Chr8 mRNA 80511247 80512746 80511247 ID=MsG0880046969.01.T01;Parent=MsG0880046969.01;Name=MsG0880046969.01.T01;_AED=0.50;_eAED=0.51;_QI=0|1|0.83|1|0.8|0.66|6|172|169
Chr8 exon 80512422 80512520 80512422 ID=MsG0880046969.01.T01:exon:34626;Parent=MsG0880046969.01.T01
Chr8 exon 80512631 80512746 80512631 ID=MsG0880046969.01.T01:exon:34627;Parent=MsG0880046969.01.T01
Chr8 CDS 80511247 80511405 80511247 ID=MsG0880046969.01.T01:cds;Parent=MsG0880046969.01.T01
Chr8 CDS 80511534 80511671 80511534 ID=MsG0880046969.01.T01:cds;Parent=MsG0880046969.01.T01
Chr8 CDS 80511990 80512067 80511990 ID=MsG0880046969.01.T01:cds;Parent=MsG0880046969.01.T01
Chr8 CDS 80512189 80512280 80512189 ID=MsG0880046969.01.T01:cds;Parent=MsG0880046969.01.T01
Chr8 CDS 80512422 80512464 80512422 ID=MsG0880046969.01.T01:cds;Parent=MsG0880046969.01.T01
Chr8 three_prime_UTR 80512465 80512520 80512465 ID=MsG0880046969.01.T01:three_prime_utr;Parent=MsG0880046969.01.T01
Chr8 three_prime_UTR 80512631 80512746 80512631 ID=MsG0880046969.01.T01:three_prime_utr;Parent=MsG0880046969.01.T01
Chr8 mRNA 80511247 80512892 80511247 ID=MsG0880046969.01.T02;Parent=MsG0880046969.01;Name=MsG0880046969.01.T02;_AED=0.49;_eAED=0.50;_QI=0|1|0.8|1|1|1|5|428|169
Chr8 exon 80512422 80512892 80512422 ID=MsG0880046969.01.T02:exon:34628;Parent=MsG0880046969.01.T02
Chr8 CDS 80511247 80511405 80511247 ID=MsG0880046969.01.T02:cds;Parent=MsG0880046969.01.T02
Chr8 CDS 80511534 80511671 80511534 ID=MsG0880046969.01.T02:cds;Parent=MsG0880046969.01.T02
Chr8 CDS 80511990 80512067 80511990 ID=MsG0880046969.01.T02:cds;Parent=MsG0880046969.01.T02
Chr8 CDS 80512189 80512280 80512189 ID=MsG0880046969.01.T02:cds;Parent=MsG0880046969.01.T02
Chr8 CDS 80512422 80512464 80512422 ID=MsG0880046969.01.T02:cds;Parent=MsG0880046969.01.T02
Chr8 three_prime_UTR 80512465 80512892 80512465 ID=MsG0880046969.01.T02:three_prime_utr;Parent=MsG0880046969.01.T02
Gene Sequence

>MsG0880046969.01.T01

ATGATAAGCTCGATCCTTTTTAACCGACAGGAATTAAGACATCAAGTGAGTTTAATAAGGAACGTTGCTGAGAAAGTGTTCTCTGAGATGGGCTCTTCATTAAGCTATAAGGTTGGAACTATGATAGAAGTTCCAAGAGCTGCACTAGTTGCAGATGAGATTGCAAATGAAGCCGATTTCTTTTCATTTGGAACCAACGACCTTACCCAAATGACATTTGGTTACAGTAGAGATGATGTTAGTAAGTTTCTTCCTACATACCTATCCGCAGGGATTTTGCAGCATGATCCATTTGAGGTACTTGACCAGAAAGGTGTGGGTCAACTCATCAAAATTTGCACAGAAAAGGGTCGTGCTGCTAAACCAAATTTGAAGGTTGGAATATGTGGAGAGCATGGCGGGGAGCCTTCTTCTGTTGCATTCTTTGCTCAACTTGGACTTGACTATGTCTCATGTTCACCATTCAGGGTTCCGATTGCTAGACTTGCAGCAGCTCAATTTGCAGCGTAA

>MsG0880046969.01.T02

ATGATAAGCTCGATCCTTTTTAACCGACAGGAATTAAGACATCAAGTGAGTTTAATAAGGAACGTTGCTGAGAAAGTGTTCTCTGAGATGGGCTCTTCATTAAGCTATAAGGTTGGAACTATGATAGAAGTTCCAAGAGCTGCACTAGTTGCAGATGAGATTGCAAATGAAGCCGATTTCTTTTCATTTGGAACCAACGACCTTACCCAAATGACATTTGGTTACAGTAGAGATGATGTTAGTAAGTTTCTTCCTACATACCTATCCGCAGGGATTTTGCAGCATGATCCATTTGAGGTACTTGACCAGAAAGGTGTGGGTCAACTCATCAAAATTTGCACAGAAAAGGGTCGTGCTGCTAAACCAAATTTGAAGGTTGGAATATGTGGAGAGCATGGCGGGGAGCCTTCTTCTGTTGCATTCTTTGCTCAACTTGGACTTGACTATGTCTCATGTTCACCATTCAGGGTTCCGATTGCTAGACTTGCAGCAGCTCAATTTGCAGCGTAA

Protein sequence

>MsG0880046969.01.T01

MISSILFNRQELRHQVSLIRNVAEKVFSEMGSSLSYKVGTMIEVPRAALVADEIANEADFFSFGTNDLTQMTFGYSRDDVSKFLPTYLSAGILQHDPFEVLDQKGVGQLIKICTEKGRAAKPNLKVGICGEHGGEPSSVAFFAQLGLDYVSCSPFRVPIARLAAAQFAA*

>MsG0880046969.01.T02

MISSILFNRQELRHQVSLIRNVAEKVFSEMGSSLSYKVGTMIEVPRAALVADEIANEADFFSFGTNDLTQMTFGYSRDDVSKFLPTYLSAGILQHDPFEVLDQKGVGQLIKICTEKGRAAKPNLKVGICGEHGGEPSSVAFFAQLGLDYVSCSPFRVPIARLAAAQFAA*