AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene77739


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene77739.t1 MTR_0157s0070 100.000 122 0 0 1 122 1 122 4.56e-88 251
MS.gene77739.t1 MTR_4g034030 100.000 122 0 0 1 122 1 122 4.56e-88 251
MS.gene77739.t1 MTR_7g092720 98.361 122 2 0 1 122 1 122 7.09e-87 248
MS.gene77739.t1 MTR_2g085090 97.500 120 3 0 3 122 4 123 6.20e-84 241
MS.gene77739.t1 MTR_1g091057 97.500 120 3 0 3 122 4 123 6.20e-84 241
MS.gene77739.t1 MTR_4g034030 100.000 85 0 0 38 122 3 87 1.15e-58 176
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene77739.t1 AT3G47370 88.525 122 14 0 1 122 1 122 2.90e-76 221
MS.gene77739.t1 AT3G47370 88.525 122 14 0 1 122 1 122 2.90e-76 221
MS.gene77739.t1 AT3G47370 88.525 122 14 0 1 122 1 122 2.90e-76 221
MS.gene77739.t1 AT5G62300 88.430 121 14 0 2 122 4 124 2.75e-75 219
MS.gene77739.t1 AT5G62300 88.430 121 14 0 2 122 4 124 2.75e-75 219
MS.gene77739.t1 AT3G45030 88.430 121 14 0 2 122 4 124 2.75e-75 219

Find 31 sgRNAs with CRISPR-Local

Find 100 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGCTAAGGATAAGCATCTT+AGG 0.267467 4.4:-68859585 MS.gene77739:CDS
AGAGAGTGATCCTAATCTTA+TGG 0.362238 4.4:+68859773 None:intergenic
GCCTGGTTTGGAAGAATCTC+AGG 0.435840 4.4:-68859803 MS.gene77739:CDS
GAAACCCACTAAGCCTGGTT+TGG 0.441208 4.4:-68859815 MS.gene77739:CDS
TTCTTCCAAACCAGGCTTAG+TGG 0.453985 4.4:+68859810 None:intergenic
AGGAACAGATCCATAAGATT+AGG 0.460004 4.4:-68859783 MS.gene77739:CDS
ACATGTTCAGAATCTTGAAA+AGG 0.466965 4.4:-68859743 MS.gene77739:CDS
GTAATCTGCTTGACAACATC+AGG 0.478418 4.4:+68857953 None:intergenic
CATGTTCAGAATCTTGAAAA+GGG 0.486597 4.4:-68859742 MS.gene77739:intron
TCCTGAGATTCTTCCAAACC+AGG 0.490218 4.4:+68859802 None:intergenic
GGTAACCTCAACTTCGACAC+CGG 0.491925 4.4:+68857913 None:intergenic
AGGAAAACCCCTTGTGGAGA+AGG 0.505939 4.4:-68859514 MS.gene77739:intron
GCAATGAAACCCACTAAGCC+TGG 0.522658 4.4:-68859820 MS.gene77739:CDS
TGCTAAGGATAAGCATCTTA+GGG 0.525206 4.4:-68859584 MS.gene77739:CDS
TCTTCCAAACCAGGCTTAGT+GGG 0.526450 4.4:+68859811 None:intergenic
TATGGTAGTTTGTAGTGACT+TGG 0.528686 4.4:-68859614 MS.gene77739:intron
TGACTTGGTTCGTGGTGCTA+AGG 0.539891 4.4:-68859599 MS.gene77739:CDS
GGATAAGCATCTTAGGGTGA+AGG 0.543022 4.4:-68859578 MS.gene77739:CDS
GTTTGTAGTGACTTGGTTCG+TGG 0.553261 4.4:-68859607 MS.gene77739:CDS
TGAACCCGGTGTCGAAGTTG+AGG 0.555520 4.4:-68857918 MS.gene77739:CDS
TGATAATCAAGCATCTGCAA+TGG 0.568022 4.4:+68857892 None:intergenic
AAAATTACCTTCTCCACAAG+GGG 0.574438 4.4:+68859507 None:intergenic
GATAAGCATCTTAGGGTGAA+GGG 0.583411 4.4:-68859577 MS.gene77739:CDS
CAACATCAGGTGAACTGTAG+AGG 0.586753 4.4:+68857966 None:intergenic
GTAACCTCAACTTCGACACC+GGG 0.590799 4.4:+68857914 None:intergenic
ATGGTTAAGGTACAAACACA+TGG 0.600096 4.4:-68858027 MS.gene77739:intron
AAGTGCTTCACATTACCACT+AGG 0.639472 4.4:-68859534 MS.gene77739:CDS
ACCACTAGGAAAACCCCTTG+TGG 0.655241 4.4:-68859520 MS.gene77739:CDS
ACATCGATCACAATTGAACC+CGG 0.686873 4.4:-68857932 MS.gene77739:CDS
TGGTTAAGGTACAAACACAT+GGG 0.706931 4.4:-68858026 MS.gene77739:intron
TTAGGGTGAAGGGACCAGTG+AGG 0.764206 4.4:-68859567 MS.gene77739:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAATTAAGACAATCAAAA+CGG + chr4.4:68858999-68859018 None:intergenic 15.0%
!! TTAAATTACATAAGCTATTT+GGG - chr4.4:68859266-68859285 MS.gene77739:intron 15.0%
!!! AAGGTAATTTTTATTTCATT+TGG - chr4.4:68858235-68858254 MS.gene77739:intron 15.0%
!!! TTTAGAATAATATTATGTCA+TGG + chr4.4:68859442-68859461 None:intergenic 15.0%
!!! TTTTATATGTGCTTTTTAAT+TGG - chr4.4:68858258-68858277 MS.gene77739:intron 15.0%
!!! TTTTTGTTTTGTTTTTGTTA+TGG - chr4.4:68858098-68858117 MS.gene77739:intron 15.0%
!! AGTAATTATAACATAAACAC+TGG + chr4.4:68858735-68858754 None:intergenic 20.0%
!! CTTAAATTACATAAGCTATT+TGG - chr4.4:68859265-68859284 MS.gene77739:intron 20.0%
!! TATTATTCATAAGTTTGTCA+AGG + chr4.4:68859125-68859144 None:intergenic 20.0%
!!! ACATTTTTCAAATAAACACT+AGG + chr4.4:68859216-68859235 None:intergenic 20.0%
!!! AGATATTAAGTTTGGTATTT+TGG - chr4.4:68858543-68858562 MS.gene77739:intron 20.0%
!!! ATAATCTGCTTTTATTACAA+TGG - chr4.4:68859522-68859541 MS.gene77739:CDS 20.0%
!!! ATTTTTCAAATAAACACTAG+GGG + chr4.4:68859214-68859233 None:intergenic 20.0%
!!! CATTTTTCAAATAAACACTA+GGG + chr4.4:68859215-68859234 None:intergenic 20.0%
!!! GATATTAAGTTTGGTATTTT+GGG - chr4.4:68858544-68858563 MS.gene77739:intron 20.0%
!!! TGTTTTGAAAATTATGAGTT+TGG - chr4.4:68858697-68858716 MS.gene77739:intron 20.0%
! TAATTATGTTACGATCATAG+TGG - chr4.4:68858480-68858499 MS.gene77739:intron 25.0%
! TATAATGACATGTGTATCAT+TGG - chr4.4:68858665-68858684 MS.gene77739:intron 25.0%
! TTTGAAAATTATGAGTTTGG+TGG - chr4.4:68858700-68858719 MS.gene77739:intron 25.0%
!! TTAGTGTATGTTTGTTTCTT+TGG - chr4.4:68858773-68858792 MS.gene77739:intron 25.0%
!!! AGCACTTCTGAAATAAAATT+TGG + chr4.4:68859247-68859266 None:intergenic 25.0%
AAAAATTACCTTCTCCACAA+GGG + chr4.4:68858227-68858246 None:intergenic 30.0%
AAAATACCCGAATTAGTTCA+TGG + chr4.4:68859562-68859581 None:intergenic 30.0%
ACATGACATCGAAAATTACA+AGG - chr4.4:68858641-68858660 MS.gene77739:intron 30.0%
ACATGTTCAGAATCTTGAAA+AGG - chr4.4:68857987-68858006 MS.gene77739:CDS 30.0%
ATTAAGAACTGCATCTAGAA+AGG + chr4.4:68859484-68859503 None:intergenic 30.0%
CATGTTCAGAATCTTGAAAA+GGG - chr4.4:68857988-68858007 MS.gene77739:CDS 30.0%
GAAACAAACATACACTAAGA+CGG + chr4.4:68858771-68858790 None:intergenic 30.0%
GACAGTCTAGATATTAAGTT+TGG - chr4.4:68858535-68858554 MS.gene77739:intron 30.0%
TAAAAATTACCTTCTCCACA+AGG + chr4.4:68858228-68858247 None:intergenic 30.0%
TAAAGTAGAATTTGGGAAGA+GGG - chr4.4:68859324-68859343 MS.gene77739:intron 30.0%
TCATGTCATGAAAATAGTTG+CGG + chr4.4:68859622-68859641 None:intergenic 30.0%
TGAAACAGATTGTCAATACA+AGG + chr4.4:68859684-68859703 None:intergenic 30.0%
TTAAGAACTGCATCTAGAAA+GGG + chr4.4:68859483-68859502 None:intergenic 30.0%
! TGTATTGACAATCTGTTTCA+TGG - chr4.4:68859684-68859703 MS.gene77739:intron 30.0%
!! TGCACTCTAAAGTAGAATTT+GGG - chr4.4:68859317-68859336 MS.gene77739:intron 30.0%
!! TTGCACTCTAAAGTAGAATT+TGG - chr4.4:68859316-68859335 MS.gene77739:intron 30.0%
AAAATTACCTTCTCCACAAG+GGG + chr4.4:68858226-68858245 None:intergenic 35.0%
AGAGAGTGATCCTAATCTTA+TGG + chr4.4:68857960-68857979 None:intergenic 35.0%
AGGAACAGATCCATAAGATT+AGG - chr4.4:68857947-68857966 MS.gene77739:CDS 35.0%
ATCAGCTCCATGAACTAATT+CGG - chr4.4:68859552-68859571 MS.gene77739:CDS 35.0%
ATGGTTAAGGTACAAACACA+TGG - chr4.4:68859703-68859722 MS.gene77739:intron 35.0%
CATGTCATGAAAATAGTTGC+GGG + chr4.4:68859621-68859640 None:intergenic 35.0%
CTAAAGTAGAATTTGGGAAG+AGG - chr4.4:68859323-68859342 MS.gene77739:intron 35.0%
GACAATCTGTTTCATGGTTA+AGG - chr4.4:68859690-68859709 MS.gene77739:intron 35.0%
TACTTAGAAATTGCGTGGAT+TGG - chr4.4:68858935-68858954 MS.gene77739:intron 35.0%
TGCTAAGGATAAGCATCTTA+GGG - chr4.4:68858146-68858165 MS.gene77739:intron 35.0%
TGGTTAAGGTACAAACACAT+GGG - chr4.4:68859704-68859723 MS.gene77739:intron 35.0%
TGTTAGTGTCATGTTTGAGT+CGG - chr4.4:68858872-68858891 MS.gene77739:intron 35.0%
TGTTCTAACACATGATATCG+AGG + chr4.4:68858386-68858405 None:intergenic 35.0%
! CGCAATATCATTTGAAGTCT+TGG - chr4.4:68858961-68858980 MS.gene77739:intron 35.0%
! TATGGTAGTTTGTAGTGACT+TGG - chr4.4:68858116-68858135 MS.gene77739:intron 35.0%
!! GTAATGTGAAGCACTTTTGT+TGG + chr4.4:68858192-68858211 None:intergenic 35.0%
!! TAGAAAGGGAGTGTTTCAAA+TGG + chr4.4:68859469-68859488 None:intergenic 35.0%
AAGTGCTTCACATTACCACT+AGG - chr4.4:68858196-68858215 MS.gene77739:intron 40.0%
ACATCGATCACAATTGAACC+CGG - chr4.4:68859798-68859817 MS.gene77739:CDS 40.0%
ATAAACACTAGGGGTCTGTT+TGG + chr4.4:68859205-68859224 None:intergenic 40.0%
ATCAACGCATTAGTACCCAT+TGG + chr4.4:68858611-68858630 None:intergenic 40.0%
GAAAATAGTTGCGGGCATTT+GGG + chr4.4:68859613-68859632 None:intergenic 40.0%
GATAAGCATCTTAGGGTGAA+GGG - chr4.4:68858153-68858172 MS.gene77739:intron 40.0%
GCATTAGTACCCATTGGATT+CGG + chr4.4:68858605-68858624 None:intergenic 40.0%
GTAATCTGCTTGACAACATC+AGG + chr4.4:68859780-68859799 None:intergenic 40.0%
GTGCTAAGGATAAGCATCTT+AGG - chr4.4:68858145-68858164 MS.gene77739:intron 40.0%
TCAGCTCCATGAACTAATTC+GGG - chr4.4:68859553-68859572 MS.gene77739:CDS 40.0%
TGAAAATAGTTGCGGGCATT+TGG + chr4.4:68859614-68859633 None:intergenic 40.0%
! AGAATTTGGGAAGAGGGTAT+TGG - chr4.4:68859330-68859349 MS.gene77739:intron 40.0%
! GAGTGTCTGAAACAATGTGT+TGG + chr4.4:68858901-68858920 None:intergenic 40.0%
!! AGTGCTACTTAGAAATTGCG+TGG - chr4.4:68858930-68858949 MS.gene77739:intron 40.0%
!! GAATTTGGGAAGAGGGTATT+GGG - chr4.4:68859331-68859350 MS.gene77739:intron 40.0%
ACTGTCCAATCCGAATCCAA+TGG - chr4.4:68858592-68858611 MS.gene77739:intron 45.0%
AGTACCCATTGGATTCGGAT+TGG + chr4.4:68858600-68858619 None:intergenic 45.0%
CAACATCAGGTGAACTGTAG+AGG + chr4.4:68859767-68859786 None:intergenic 45.0%
CTGTCCAATCCGAATCCAAT+GGG - chr4.4:68858593-68858612 MS.gene77739:intron 45.0%
GATCATAGTGGTCAGCACAT+TGG - chr4.4:68858492-68858511 MS.gene77739:intron 45.0%
GGATAAGCATCTTAGGGTGA+AGG - chr4.4:68858152-68858171 MS.gene77739:intron 45.0%
GTGTTGTCAGACACTAGTGT+CGG + chr4.4:68858439-68858458 None:intergenic 45.0%
TCCTGAGATTCTTCCAAACC+AGG + chr4.4:68857931-68857950 None:intergenic 45.0%
TCTTCCAAACCAGGCTTAGT+GGG + chr4.4:68857922-68857941 None:intergenic 45.0%
TGTTGTCAGACACTAGTGTC+GGG + chr4.4:68858438-68858457 None:intergenic 45.0%
TTCTTCCAAACCAGGCTTAG+TGG + chr4.4:68857923-68857942 None:intergenic 45.0%
! ACTTTTGTTGGCATCCTCAC+TGG + chr4.4:68858180-68858199 None:intergenic 45.0%
! TCAGCACATTGGTGACTGTT+GGG - chr4.4:68858503-68858522 MS.gene77739:intron 45.0%
! TCATGTCAGTGTTGAACGTG+TGG + chr4.4:68858813-68858832 None:intergenic 45.0%
!! GTTTGTAGTGACTTGGTTCG+TGG - chr4.4:68858123-68858142 MS.gene77739:intron 45.0%
!!! TTTTTTATGTTTTTTTTATT+AGG - chr4.4:68858031-68858050 MS.gene77739:intron 5.0%
ACCACTAGGAAAACCCCTTG+TGG - chr4.4:68858210-68858229 MS.gene77739:intron 50.0%
AGGAAAACCCCTTGTGGAGA+AGG - chr4.4:68858216-68858235 MS.gene77739:intron 50.0%
CACTAGGGGTCTGTTTGGAT+TGG + chr4.4:68859200-68859219 None:intergenic 50.0%
GAAACCCACTAAGCCTGGTT+TGG - chr4.4:68857915-68857934 MS.gene77739:CDS 50.0%
GCAATGAAACCCACTAAGCC+TGG - chr4.4:68857910-68857929 MS.gene77739:CDS 50.0%
GGTAACCTCAACTTCGACAC+CGG + chr4.4:68859820-68859839 None:intergenic 50.0%
GTAACCTCAACTTCGACACC+GGG + chr4.4:68859819-68859838 None:intergenic 50.0%
! GTCAGCACATTGGTGACTGT+TGG - chr4.4:68858502-68858521 MS.gene77739:intron 50.0%
! TCCACAAGGGGTTTTCCTAG+TGG + chr4.4:68858214-68858233 None:intergenic 50.0%
! TGTCAGTGTTGAACGTGTGG+TGG + chr4.4:68858810-68858829 None:intergenic 50.0%
!! GCCTGGTTTGGAAGAATCTC+AGG - chr4.4:68857927-68857946 MS.gene77739:CDS 50.0%
!! TGACTTGGTTCGTGGTGCTA+AGG - chr4.4:68858131-68858150 MS.gene77739:intron 50.0%
CACTAAGACGGACACACGCA+AGG + chr4.4:68858759-68858778 None:intergenic 55.0%
TTAGGGTGAAGGGACCAGTG+AGG - chr4.4:68858163-68858182 MS.gene77739:intron 55.0%
! TGAACCCGGTGTCGAAGTTG+AGG - chr4.4:68859812-68859831 MS.gene77739:CDS 55.0%


Chromosome Type Strat End Strand Name
chr4.4 gene 68857898 68859854 68857898 ID=MS.gene77739
chr4.4 mRNA 68857898 68859854 68857898 ID=MS.gene77739.t1;Parent=MS.gene77739
chr4.4 exon 68859743 68859854 68859743 ID=MS.gene77739.t1.exon1;Parent=MS.gene77739.t1
chr4.4 CDS 68859743 68859854 68859743 ID=cds.MS.gene77739.t1;Parent=MS.gene77739.t1
chr4.4 exon 68859515 68859628 68859515 ID=MS.gene77739.t1.exon2;Parent=MS.gene77739.t1
chr4.4 CDS 68859515 68859628 68859515 ID=cds.MS.gene77739.t1;Parent=MS.gene77739.t1
chr4.4 exon 68857898 68858040 68857898 ID=MS.gene77739.t1.exon3;Parent=MS.gene77739.t1
chr4.4 CDS 68857898 68858040 68857898 ID=cds.MS.gene77739.t1;Parent=MS.gene77739.t1
Gene Sequence

>MS.gene77739

ATGGCATATGCTGCAATGAAACCCACTAAGCCTGGTTTGGAAGAATCTCAGGAACAGATCCATAAGATTAGGATCACTCTCTCTTCAAAACATGTTCAGAATCTTGAAAAGGGTATGTTCATTTTTCATTTTTTTTTTTATGTTTTTTTTATTAGGTTCTAGATGTTTTTATTTGATGTTTTTGTTTTTTGTGCTAATTTTTTTTGTTTTGTTTTTGTTATGGTAGTTTGTAGTGACTTGGTTCGTGGTGCTAAGGATAAGCATCTTAGGGTGAAGGGACCAGTGAGGATGCCAACAAAAGTGCTTCACATTACCACTAGGAAAACCCCTTGTGGAGAAGGTAATTTTTATTTCATTTGGTTTTATATGTGCTTTTTAATTGGTTAGTTTTTTAATTTAATCAGAAATGTTGTTTGTTTCATGATATTAATAATAATATTGAAGTTAGATGCTATAAGTATTTTAGATTGCTTGTAGTCGAGATACCTCGATATCATGTGTTAGAACAGATACTTCTGATTGAATGTGTGTTCTGTGCCCGACACTAGTGTCTGACAACACACTAACATATGTGATTAGAGTTAATTATGTTACGATCATAGTGGTCAGCACATTGGTGACTGTTGGGTTAAGATCTGACAGTCTAGATATTAAGTTTGGTATTTTGGGTTTTCATCATTTGCATAATTTGTGAACTGTCCAATCCGAATCCAATGGGTACTAATGCGTTGATTGCGTAAGATACATGACATCGAAAATTACAAGGATATAATGACATGTGTATCATTGGTGAACTTTTTGTTTTGAAAATTATGAGTTTGGTGGTGAGTACAACCAGTGTTTATGTTATAATTACTGCCTTGCGTGTGTCCGTCTTAGTGTATGTTTGTTTCTTTGGTAGAGTTAACGCCACCACACGTTCAACACTGACATGATAATTGTGCGAGAAAATGACTATTGAATATAATCACATGTGTTAGTGTCATGTTTGAGTCGGACACCAACACATTGTTTCAGACACTCAGACACATCAGTGCTACTTAGAAATTGCGTGGATTGGAAGCGCAATATCATTTGAAGTCTTGGATGATTAAGTGTCCGTTTTGATTGTCTTAATTTTTAGCTTAAGAAAAATAACTTATGCAAATAAACAAGTTTTTACGTTAATTCATAAGTTCTTGCTAACTAATATTGTATCTTGATAAGCTGTTTTTTCATAAACTACCTTGACAAACTTATGAATAATACATAAAAGCTTATTTATTTGCATAAGCTGTTATGCTTAAGCTCAAATATAAGCCAATCCAAACAGACCCCTAGTGTTTATTTGAAAAATGTTTATTATGCCAAATTTTATTTCAGAAGTGCTTAAATTACATAAGCTATTTGGGTGCTATTTGTGTTCGTATAACATTTTTTTGCACTCTAAAGTAGAATTTGGGAAGAGGGTATTGGGTATTTCAATACACTATATTAGAGAGTTTGTTTAATGAAGCTAATAGCATAGCATCTGTCATATTATTAAGATCTTTCAAATACTTCCATGACATAATATTATTCTAAATTAGCCATTTGAAACACTCCCTTTCTAGATGCAGTTCTTAATATTGTTTCATTTTGAACAATAATCTGCTTTTATTACAATGGAATGATAATCAGCTCCATGAACTAATTCGGGTATTTTACGATATAAAATAAAGATTATAAAATTTCCCAAATGCCCGCAACTATTTTCATGACATGACTGTCAATCACATTGTTTATTTGATTGAATTTCGTTATACCTTGTATTGACAATCTGTTTCATGGTTAAGGTACAAACACATGGGACAGATTTGAGCTGCGTGTGCACAAGAGAGTCATTGACCTCTACAGTTCACCTGATGTTGTCAAGCAGATTACATCGATCACAATTGAACCCGGTGTCGAAGTTGAGGTTACCATTGCAGATGCTTGA

Protein sequence

>MS.gene77739.t1

MAYAAMKPTKPGLEESQEQIHKIRITLSSKHVQNLEKVCSDLVRGAKDKHLRVKGPVRMPTKVLHITTRKTPCGEGTNTWDRFELRVHKRVIDLYSSPDVVKQITSITIEPGVEVEVTIADA