AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene24634

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene24634.t1 MTR_7g103630 100.000 70 0 0 1 70 122 191 1.16e-47 153
MS.gene24634.t1 MTR_2g084715 87.143 70 9 0 1 70 108 177 4.98e-42 139
MS.gene24634.t1 MTR_1g035130 82.609 69 12 0 1 69 108 176 2.62e-38 128
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene24634.t1 AT5G42820 84.286 70 11 0 1 70 108 177 1.41e-35 121
MS.gene24634.t1 AT5G42820 84.286 70 11 0 1 70 108 177 1.41e-35 121
MS.gene24634.t1 AT1G27650 82.857 70 12 0 1 70 58 127 4.96e-35 119
MS.gene24634.t1 AT1G27650 82.857 70 12 0 1 70 108 177 2.38e-34 118

Find 10 sgRNAs with CRISPR-Local

Find 95 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTTGACTTCTCTCCTGTTA+CGG 0.406173 7.3:+10480765 MS.gene24634:CDS
GCTTCTCGAAAATCCGTAAC+AGG 0.408045 7.3:-10480778 None:intergenic
TGCATCTAAAGAAGATTAGC+AGG 0.461797 7.3:+10480857 MS.gene24634:CDS
GGAGAGAAGTCAACAATGAT+TGG 0.494146 7.3:-10480757 None:intergenic
TGTATATGTTCAGTATAAAG+AGG 0.534599 7.3:+10479471 MS.gene24634:CDS
AATGCTCTTATGAATCTCAC+TGG 0.570244 7.3:+10479508 MS.gene24634:CDS
TCATAAGAGCATTAGCAGCA+TGG 0.602037 7.3:-10479498 None:intergenic
AGAAGTCAACAATGATTGGT+CGG 0.606403 7.3:-10480753 None:intergenic
GAAGAGAATGTATGCAATCG+TGG 0.631879 7.3:+10480817 MS.gene24634:CDS
GAGAATGTATGCAATCGTGG+TGG 0.723621 7.3:+10480820 MS.gene24634:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATATTATATATATATATAT+TGG - chr7.3:10479579-10479598 None:intergenic 0.0%
!! AAACAAAAATCATAAAAATT+AGG - chr7.3:10479436-10479455 None:intergenic 10.0%
!! AACAAAAATCATAAAAATTA+GGG - chr7.3:10479435-10479454 None:intergenic 10.0%
!! TATATATATATATGATGATT+TGG + chr7.3:10479615-10479634 MS.gene24634:intron 10.0%
!!! TTATGATTTTTGTTTTTTAT+AGG + chr7.3:10479441-10479460 MS.gene24634:intron 10.0%
!! CAAATATTAATGATTATTTC+AGG + chr7.3:10480600-10480619 MS.gene24634:intron 15.0%
!! AGAAAAGAAAATTACAATTG+TGG - chr7.3:10480501-10480520 None:intergenic 20.0%
!! GAAAAGAAAATTACAATTGT+GGG - chr7.3:10480500-10480519 None:intergenic 20.0%
!! TTCATAAATCAAAAAGAGAA+AGG - chr7.3:10479388-10479407 None:intergenic 20.0%
!! TTTAGATTGAGATATTCAAT+TGG + chr7.3:10480242-10480261 MS.gene24634:intron 20.0%
!!! GATTTTTGTTTTTTATAGGT+TGG + chr7.3:10479445-10479464 MS.gene24634:intron 20.0%
!!! TATTAATGATTATTTCAGGT+AGG + chr7.3:10480604-10480623 MS.gene24634:intron 20.0%
!!! TTTTTCTAAGACAAACTATT+AGG + chr7.3:10480036-10480055 MS.gene24634:intron 20.0%
!!! TTTTTTTTTTTTTTCCTTCC+TGG + chr7.3:10480472-10480491 MS.gene24634:intron 20.0%
! ACATGACATATATTGAAACA+TGG - chr7.3:10479720-10479739 None:intergenic 25.0%
! ACTAAAGGCAATATTCATAT+TGG + chr7.3:10480203-10480222 MS.gene24634:intron 25.0%
! TGTATATGTTCAGTATAAAG+AGG + chr7.3:10479471-10479490 MS.gene24634:CDS 25.0%
! TTATTCAATTGTTTGTGCTT+TGG + chr7.3:10479657-10479676 MS.gene24634:intron 25.0%
!! TTATCTGATGGAATGATTTT+TGG + chr7.3:10480344-10480363 MS.gene24634:intron 25.0%
!!! CACTTGATTTATTTTTGTGT+TGG - chr7.3:10479792-10479811 None:intergenic 25.0%
!!! TATATATGATGATTTGGTTG+TGG + chr7.3:10479621-10479640 MS.gene24634:intron 25.0%
CAATAAAAGTGGGTACAATA+AGG - chr7.3:10480291-10480310 None:intergenic 30.0%
TATTGCCTTTAGTTACACAA+AGG - chr7.3:10480196-10480215 None:intergenic 30.0%
TGAATCCTTTGTGTAACTAA+AGG + chr7.3:10480188-10480207 MS.gene24634:intron 30.0%
TGGTACATGATAGAACATTA+TGG + chr7.3:10480093-10480112 MS.gene24634:intron 30.0%
! CAACTTTAGAGAGATAGTTA+GGG + chr7.3:10479877-10479896 MS.gene24634:intron 30.0%
! TAATGAGTTGGATCGAAATT+TGG + chr7.3:10480073-10480092 MS.gene24634:intron 30.0%
!! CTTATTGTACCCACTTTTAT+TGG + chr7.3:10480289-10480308 MS.gene24634:intron 30.0%
!! TGATGGAATGATTTTTGGAT+AGG + chr7.3:10480349-10480368 MS.gene24634:intron 30.0%
!!! AGGTTCTGAATTTTGTAGTT+AGG + chr7.3:10479543-10479562 MS.gene24634:intron 30.0%
!!! GGTTCTGAATTTTGTAGTTA+GGG + chr7.3:10479544-10479563 MS.gene24634:intron 30.0%
AAATTACAATTGTGGGTACC+AGG - chr7.3:10480493-10480512 None:intergenic 35.0%
AAGCAATGATAGACAATGCA+CGG - chr7.3:10480679-10480698 None:intergenic 35.0%
AATGCTCTTATGAATCTCAC+TGG + chr7.3:10479508-10479527 MS.gene24634:CDS 35.0%
ACTCCCAAAATGAGTAAGAA+GGG - chr7.3:10480315-10480334 None:intergenic 35.0%
AGAAGTCAACAATGATTGGT+CGG - chr7.3:10480756-10480775 None:intergenic 35.0%
AGACTAGAGAGGATATGATT+AGG + chr7.3:10479849-10479868 MS.gene24634:intron 35.0%
AGCACTTACAGTAGAAAAGA+TGG + chr7.3:10479901-10479920 MS.gene24634:intron 35.0%
ATATACGTTGAAAACACGAG+TGG - chr7.3:10479756-10479775 None:intergenic 35.0%
ATTCCATCAGATAAAGCTCA+AGG - chr7.3:10480338-10480357 None:intergenic 35.0%
GACATGAGGATTAATTAGTG+AGG + chr7.3:10479963-10479982 MS.gene24634:intron 35.0%
TAAGAAGGGCCAATAAAAGT+GGG - chr7.3:10480301-10480320 None:intergenic 35.0%
TAGAAAAGATGGAGCAAACT+AGG + chr7.3:10479912-10479931 MS.gene24634:intron 35.0%
TTGCTACTGACATTGTGATT+TGG + chr7.3:10480714-10480733 MS.gene24634:intron 35.0%
! CCAACTTTAGAGAGATAGTT+AGG + chr7.3:10479876-10479895 MS.gene24634:intron 35.0%
! CTCACTGGAAGATTTTATTC+AGG + chr7.3:10479523-10479542 MS.gene24634:CDS 35.0%
!! ATTTTCGAGAAGCTACTTGT+AGG + chr7.3:10480788-10480807 MS.gene24634:CDS 35.0%
!! CCTAACTATCTCTCTAAAGT+TGG - chr7.3:10479879-10479898 None:intergenic 35.0%
AAACCTTACCCCACTAAATG+GGG - chr7.3:10480142-10480161 None:intergenic 40.0%
AATCAAGTGTAGCAAAGACG+AGG + chr7.3:10479803-10479822 MS.gene24634:intron 40.0%
ACAAGCAGTAAGGACAACAT+TGG - chr7.3:10480433-10480452 None:intergenic 40.0%
ACATGTAGAGAGAAGACATG+AGG + chr7.3:10479949-10479968 MS.gene24634:intron 40.0%
AGATCCAGAGACTAATGAGT+TGG + chr7.3:10480061-10480080 MS.gene24634:intron 40.0%
AGTATTGTTTGGCTGAGATG+AGG + chr7.3:10480548-10480567 MS.gene24634:intron 40.0%
ATCAAGTGTAGCAAAGACGA+GGG + chr7.3:10479804-10479823 MS.gene24634:intron 40.0%
ATTTAGCCAACCCCATTTAG+TGG + chr7.3:10480129-10480148 MS.gene24634:intron 40.0%
CAAACCTTACCCCACTAAAT+GGG - chr7.3:10480143-10480162 None:intergenic 40.0%
CAGCCAAACAATACTGAACT+CGG - chr7.3:10480543-10480562 None:intergenic 40.0%
CTACCGAGTTCAGTATTGTT+TGG + chr7.3:10480537-10480556 MS.gene24634:intron 40.0%
GAAGAGAATGTATGCAATCG+TGG + chr7.3:10480817-10480836 MS.gene24634:CDS 40.0%
GAAGGTAGTCAAATCACTAG+AGG + chr7.3:10480001-10480020 MS.gene24634:intron 40.0%
GACTCCCAAAATGAGTAAGA+AGG - chr7.3:10480316-10480335 None:intergenic 40.0%
GATGTATGGTAAGACTAGAG+AGG + chr7.3:10479838-10479857 MS.gene24634:intron 40.0%
GATTTGGCTGTCATTCTTCT+AGG + chr7.3:10480730-10480749 MS.gene24634:intron 40.0%
GGAGAGAAGTCAACAATGAT+TGG - chr7.3:10480760-10480779 None:intergenic 40.0%
GGGTGTTAGCATTTGATGTA+TGG + chr7.3:10479824-10479843 MS.gene24634:intron 40.0%
GTAAGAAGGGCCAATAAAAG+TGG - chr7.3:10480302-10480321 None:intergenic 40.0%
TGCAAACAACACAAGCAGTA+AGG - chr7.3:10480443-10480462 None:intergenic 40.0%
TTTAGCCAACCCCATTTAGT+GGG + chr7.3:10480130-10480149 MS.gene24634:intron 40.0%
! AGTCCTTGAGCTTTATCTGA+TGG + chr7.3:10480332-10480351 MS.gene24634:intron 40.0%
! GATGCGTGATCTGATAATGA+TGG + chr7.3:10479692-10479711 MS.gene24634:intron 40.0%
! TGGCCCTTCTTACTCATTTT+GGG + chr7.3:10480309-10480328 MS.gene24634:intron 40.0%
! TTGGCCCTTCTTACTCATTT+TGG + chr7.3:10480308-10480327 MS.gene24634:intron 40.0%
!! ACTAAATGGGGTTGGCTAAA+TGG - chr7.3:10480130-10480149 None:intergenic 40.0%
!! TCATAAGAGCATTAGCAGCA+TGG - chr7.3:10479501-10479520 None:intergenic 40.0%
!! TGTTGACTTCTCTCCTGTTA+CGG + chr7.3:10480765-10480784 MS.gene24634:CDS 40.0%
AATGTCAGTAGCAATGAGCG+AGG - chr7.3:10480708-10480727 None:intergenic 45.0%
AGATGGAGCAAACTAGGCTT+AGG + chr7.3:10479918-10479937 MS.gene24634:intron 45.0%
AGGAGAGTCAATCAGATGGA+AGG + chr7.3:10479983-10480002 MS.gene24634:intron 45.0%
AGTGAGGAGAGTCAATCAGA+TGG + chr7.3:10479979-10479998 MS.gene24634:intron 45.0%
CAAACTAGGCTTAGGTGGTT+TGG + chr7.3:10479926-10479945 MS.gene24634:intron 45.0%
CCAAACCTTACCCCACTAAA+TGG - chr7.3:10480144-10480163 None:intergenic 45.0%
CCATTTAGTGGGGTAAGGTT+TGG + chr7.3:10480141-10480160 MS.gene24634:intron 45.0%
GAGAATGTATGCAATCGTGG+TGG + chr7.3:10480820-10480839 MS.gene24634:CDS 45.0%
GCTTCTCGAAAATCCGTAAC+AGG - chr7.3:10480781-10480800 None:intergenic 45.0%
GGTAGTCAAATCACTAGAGG+CGG + chr7.3:10480004-10480023 MS.gene24634:intron 45.0%
TACAATTGTGGGTACCAGGA+AGG - chr7.3:10480489-10480508 None:intergenic 45.0%
TTAGCCAACCCCATTTAGTG+GGG + chr7.3:10480131-10480150 MS.gene24634:intron 45.0%
! CGATCCAACTCATTAGTCTC+TGG - chr7.3:10480068-10480087 None:intergenic 45.0%
ACCATGTGTGACAGAGCACA+AGG - chr7.3:10480377-10480396 None:intergenic 50.0%
ACCTTGTGCTCTGTCACACA+TGG + chr7.3:10480373-10480392 MS.gene24634:intron 50.0%
AGTCAAATCACTAGAGGCGG+AGG + chr7.3:10480007-10480026 MS.gene24634:intron 50.0%
CAACCCCATTTAGTGGGGTA+AGG + chr7.3:10480136-10480155 MS.gene24634:intron 50.0%
CTTACCCCACTAAATGGGGT+TGG - chr7.3:10480138-10480157 None:intergenic 50.0%
TGGAGCAAACTAGGCTTAGG+TGG + chr7.3:10479921-10479940 MS.gene24634:intron 50.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 10479367 10480878 10479367 ID=MS.gene24634
chr7.3 mRNA 10479367 10480878 10479367 ID=MS.gene24634.t1;Parent=MS.gene24634
chr7.3 exon 10479367 10479369 10479367 ID=MS.gene24634.t1.exon1;Parent=MS.gene24634.t1
chr7.3 CDS 10479367 10479369 10479367 ID=cds.MS.gene24634.t1;Parent=MS.gene24634.t1
chr7.3 exon 10479463 10479544 10479463 ID=MS.gene24634.t1.exon2;Parent=MS.gene24634.t1
chr7.3 CDS 10479463 10479544 10479463 ID=cds.MS.gene24634.t1;Parent=MS.gene24634.t1
chr7.3 exon 10480752 10480878 10480752 ID=MS.gene24634.t1.exon3;Parent=MS.gene24634.t1
chr7.3 CDS 10480752 10480878 10480752 ID=cds.MS.gene24634.t1;Parent=MS.gene24634.t1
Gene Sequence

>MS.gene24634

ATGGTTTGTATTTTAATTCCTTTCTCTTTTTGATTTATGAATCTGTTTTTTATTTTATTTTGTAACCCTAATTTTTATGATTTTTGTTTTTTATAGGTTGGCAATGTATATGTTCAGTATAAAGAGGAAGACCATGCTGCTAATGCTCTTATGAATCTCACTGGAAGATTTTATTCAGGTTCTGAATTTTGTAGTTAGGGTTTTAGTCACCAATATATATATATATAATATATATATATATATATATATATATATATATATGATGATTTGGTTGTGGTGCGCTGTTGTTGTTATTCAATTGTTTGTGCTTTGGTTTAATTCTGTTGATGCGTGATCTGATAATGATGGTGCCATGTTTCAATATATGTCATGTGTGTGTGCACTCGCCACTCGTGTTTTCAACGTATATATATATTGAAGAACCAACACAAAAATAAATCAAGTGTAGCAAAGACGAGGGTGTTAGCATTTGATGTATGGTAAGACTAGAGAGGATATGATTAGGCATGCCAACTTTAGAGAGATAGTTAGGGTAGCACTTACAGTAGAAAAGATGGAGCAAACTAGGCTTAGGTGGTTTGGACATGTAGAGAGAAGACATGAGGATTAATTAGTGAGGAGAGTCAATCAGATGGAAGGTAGTCAAATCACTAGAGGCGGAGGAAGACTTTTTTCTAAGACAAACTATTAGGAAAGATCCAGAGACTAATGAGTTGGATCGAAATTTGGTACATGATAGAACATTATGGTGTTATTTCATCCATTTAGCCAACCCCATTTAGTGGGGTAAGGTTTGGTTGTTGTTTGTTGTGTGTGTTCTTTGAATCCTTTGTGTAACTAAAGGCAATATTCATATTGGTTTTAGTTCATTAGAATTTAGATTGAGATATTCAATTGGTTTGCATTAGTTCTCTATGTTTACCTTATTGTACCCACTTTTATTGGCCCTTCTTACTCATTTTGGGAGTCCTTGAGCTTTATCTGATGGAATGATTTTTGGATAGGTACCTTGTGCTCTGTCACACATGGTAGTTCTTATTTTCTTCAGTACATCTGCTACTGTCCAATGTTGTCCTTACTGCTTGTGTTGTTTGCATTTAGTTTTTTTTTTTTTTTTTTCCTTCCTGGTACCCACAATTGTAATTTTCTTTTCTATAGCAATTAACATTGCTACCGAGTTCAGTATTGTTTGGCTGAGATGAGGCTATTGTGTTATTCATACTTGCAAGTACACAAATATTAATGATTATTTCAGGTAGGACACTGATTATGTTCAAAACTTGTTGTGTCATGTAACACATACGAAAATCCGTGCATTGTCTATCATTGCTTGTTTCTCCTCGCTCATTGCTACTGACATTGTGATTTGGCTGTCATTCTTCTAGGCCGACCAATCATTGTTGACTTCTCTCCTGTTACGGATTTTCGAGAAGCTACTTGTAGGCAGTACGAAGAGAATGTATGCAATCGTGGTGGCTACTGCAACTTTATGCATCTAAAGAAGATTAGCAG
Protein sequence

>MS.gene24634.t1

MVGNVYVQYKEEDHAANALMNLTGRFYSGRPIIVDFSPVTDFREATCRQYEENVCNRGGYCNFMHLKKIS