AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene055455


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055455.t1 MTR_3g109360 99.216 255 2 0 1 255 1 255 0.0 528
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055455.t1 AT5G24840 79.835 243 46 2 8 249 8 248 1.12e-146 410

Find 65 sgRNAs with CRISPR-Local

Find 71 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGATTAAGTTTGCCGATAT+TGG 0.221557 3.3:-89671173 MS.gene055455:CDS
TCCGCACCACAGAAACATTT+TGG 0.250656 3.3:+89671009 None:intergenic
ATTCCGATCATCAATGTTTC+TGG 0.252188 3.3:+89671107 None:intergenic
GCCGATATTGGCTGTGGTTT+TGG 0.274610 3.3:-89671161 MS.gene055455:CDS
CCTCGTTTCTAGCAACCTTT+TGG 0.326676 3.3:+89670679 None:intergenic
TAAAATGAGGATCGGGAAAC+AGG 0.368009 3.3:+89670925 None:intergenic
TTCTCTTTAAAATGAGGATC+GGG 0.398927 3.3:+89670918 None:intergenic
GCATACTCATCTAGTAAGAA+TGG 0.400409 3.3:+89670870 None:intergenic
AAACGAGGGACAAACTTTCC+AGG 0.404412 3.3:-89670664 MS.gene055455:CDS
TTGTGCTTTCTCAAAGTGAT+TGG 0.404689 3.3:+89670965 None:intergenic
GGACTGGATGAAATCTTGTT+TGG 0.409104 3.3:-89670790 MS.gene055455:CDS
TCCAAAACCACAGCCAATAT+CGG 0.417152 3.3:+89671160 None:intergenic
TTAAGCTCTGCCACTGAAGA+AGG 0.428496 3.3:-89670702 MS.gene055455:CDS
TGTGCTTTCTCAAAGTGATT+GGG 0.444654 3.3:+89670966 None:intergenic
TCAACATTCAGTAAGTCAAC+AGG 0.452366 3.3:-89671347 MS.gene055455:CDS
GTGATTGGGAATGTACTTCA+TGG 0.454613 3.3:+89670980 None:intergenic
GTTGAATTTCCACCAGTCTC+AGG 0.455044 3.3:+89671365 None:intergenic
TGGTTCTTCTCTTTAAAATG+AGG 0.455252 3.3:+89670912 None:intergenic
CAGTCAAAGGTTCAAACAAC+GGG 0.464877 3.3:+89670760 None:intergenic
TAAAGTGTCCGAGTATGTTA+AGG 0.471708 3.3:-89671072 MS.gene055455:CDS
TCAAGTTCTTTCTCAGTCAA+AGG 0.473439 3.3:+89670747 None:intergenic
ATAACAGATGTGGAAGAACT+TGG 0.476880 3.3:-89670813 MS.gene055455:CDS
GCTCGATAGAAGCGCTTTCG+AGG 0.477207 3.3:+89671320 None:intergenic
TCTTTAAGGGTAGCAAATCC+AGG 0.486768 3.3:-89671038 MS.gene055455:CDS
GAAAGAACTTGAAGCAGATC+CGG 0.487319 3.3:-89670736 MS.gene055455:CDS
TTCCGATCATCAATGTTTCT+GGG 0.488618 3.3:+89671108 None:intergenic
AGAGAAGAACCATCGCCGTC+GGG 0.492041 3.3:-89670901 MS.gene055455:CDS
GAGGGAATAGTCAACATGAC+TGG 0.493842 3.3:+89671244 None:intergenic
CTTCTCTTTAAAATGAGGAT+CGG 0.494124 3.3:+89670917 None:intergenic
CATACTCATCTAGTAAGAAT+GGG 0.503167 3.3:+89670871 None:intergenic
TGCCACTGAAGAAGGCCAAA+AGG 0.507812 3.3:-89670694 MS.gene055455:CDS
TCAACATGACTGGGTGATAA+CGG 0.513146 3.3:+89671254 None:intergenic
AGGGAAAGAACTGAGGGTAA+TGG 0.514591 3.3:+89671222 None:intergenic
AAGTTTGCCGATATTGGCTG+TGG 0.514722 3.3:-89671167 MS.gene055455:CDS
GAAAGAACTGAGGGTAATGG+AGG 0.517145 3.3:+89671225 None:intergenic
TAACAGATGTGGAAGAACTT+GGG 0.526686 3.3:-89670812 MS.gene055455:CDS
AAGAGAAGAACCATCGCCGT+CGG 0.534336 3.3:-89670902 MS.gene055455:CDS
CTATCAGCTTTCTCAGACGA+GGG 0.534942 3.3:+89671203 None:intergenic
CAATGCGTCTGTATACAGCC+TGG 0.550730 3.3:+89670646 None:intergenic
GGCTGATAACCCGACGGCGA+TGG 0.555787 3.3:+89670892 None:intergenic
TAAACAGACATGCCTGAGAC+TGG 0.565306 3.3:-89671377 None:intergenic
ACCAAAATGTTTCTGTGGTG+CGG 0.567556 3.3:-89671010 MS.gene055455:CDS
AATTCGTTCCTTAACATACT+CGG 0.570956 3.3:+89671064 None:intergenic
TTCCCAGAAACATTGATGAT+CGG 0.572410 3.3:-89671110 MS.gene055455:CDS
GAGCTTAAAAGCTTAACAGC+CGG 0.573038 3.3:+89670717 None:intergenic
ATGTGGAAGAACTTGGGGAC+TGG 0.574117 3.3:-89670806 MS.gene055455:CDS
TGACTGGGTGATAACGGCAC+AGG 0.576851 3.3:+89671260 None:intergenic
AGAAACATTGATGATCGGAA+TGG 0.582107 3.3:-89671105 MS.gene055455:CDS
AAAGAACTGAGGGTAATGGA+GGG 0.599329 3.3:+89671226 None:intergenic
TATATACACAATAACAGATG+TGG 0.600775 3.3:-89670823 MS.gene055455:CDS
AACAGATGTGGAAGAACTTG+GGG 0.605004 3.3:-89670811 MS.gene055455:CDS
GGAAATGAGAGTCACTGAGC+GGG 0.605858 3.3:+89671282 None:intergenic
GACTGGGTGATAACGGCACA+GGG 0.611699 3.3:+89671261 None:intergenic
TCAGTCAAAGGTTCAAACAA+CGG 0.617042 3.3:+89670759 None:intergenic
TCAATACCAAAATGTTTCTG+TGG 0.618646 3.3:-89671015 MS.gene055455:CDS
CCAAAAGGTTGCTAGAAACG+AGG 0.621682 3.3:-89670679 MS.gene055455:CDS
AGGGAATAGTCAACATGACT+GGG 0.631622 3.3:+89671245 None:intergenic
ACAGACATGCCTGAGACTGG+TGG 0.638512 3.3:-89671374 None:intergenic
GGGAAATGAGAGTCACTGAG+CGG 0.640601 3.3:+89671281 None:intergenic
CAAAAGGTTGCTAGAAACGA+GGG 0.641444 3.3:-89670678 MS.gene055455:CDS
ACTATCAGCTTTCTCAGACG+AGG 0.648094 3.3:+89671202 None:intergenic
CAATGTTTCTGGGAACAGAG+TGG 0.655902 3.3:+89671118 None:intergenic
CAGACGAGGGAAAGAACTGA+GGG 0.659441 3.3:+89671216 None:intergenic
TCAGACGAGGGAAAGAACTG+AGG 0.695327 3.3:+89671215 None:intergenic
AGAATGGGCTGATAACCCGA+CGG 0.724299 3.3:+89670886 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TATATACACAATAACAGATG+TGG - chr3.3:89671168-89671187 MS.gene055455:CDS 25.0%
!! AGGAACGAATTTTATCTTTA+AGG - chr3.3:89670939-89670958 MS.gene055455:CDS 25.0%
!! GGAACGAATTTTATCTTTAA+GGG - chr3.3:89670940-89670959 MS.gene055455:CDS 25.0%
AAGATTAAGTTTGCCGATAT+TGG - chr3.3:89670818-89670837 MS.gene055455:CDS 30.0%
AATTCGTTCCTTAACATACT+CGG + chr3.3:89670930-89670949 None:intergenic 30.0%
CATACTCATCTAGTAAGAAT+GGG + chr3.3:89671123-89671142 None:intergenic 30.0%
! TATGCTTTTGTTCTTGAGAT+TGG - chr3.3:89671139-89671158 MS.gene055455:CDS 30.0%
! TCAATACCAAAATGTTTCTG+TGG - chr3.3:89670976-89670995 MS.gene055455:CDS 30.0%
!! CTTCTCTTTAAAATGAGGAT+CGG + chr3.3:89671077-89671096 None:intergenic 30.0%
!! TGGTTCTTCTCTTTAAAATG+AGG + chr3.3:89671082-89671101 None:intergenic 30.0%
!! TTCTCTTTAAAATGAGGATC+GGG + chr3.3:89671076-89671095 None:intergenic 30.0%
ATAACAGATGTGGAAGAACT+TGG - chr3.3:89671178-89671197 MS.gene055455:CDS 35.0%
ATTCCGATCATCAATGTTTC+TGG + chr3.3:89670887-89670906 None:intergenic 35.0%
GCATACTCATCTAGTAAGAA+TGG + chr3.3:89671124-89671143 None:intergenic 35.0%
TAACAGATGTGGAAGAACTT+GGG - chr3.3:89671179-89671198 MS.gene055455:CDS 35.0%
TCAACATTCAGTAAGTCAAC+AGG - chr3.3:89670644-89670663 MS.gene055455:CDS 35.0%
TCAAGTTCTTTCTCAGTCAA+AGG + chr3.3:89671247-89671266 None:intergenic 35.0%
TCAGTCAAAGGTTCAAACAA+CGG + chr3.3:89671235-89671254 None:intergenic 35.0%
TGTGCTTTCTCAAAGTGATT+GGG + chr3.3:89671028-89671047 None:intergenic 35.0%
TTCCGATCATCAATGTTTCT+GGG + chr3.3:89670886-89670905 None:intergenic 35.0%
TTGTGCTTTCTCAAAGTGAT+TGG + chr3.3:89671029-89671048 None:intergenic 35.0%
! AGAAACATTGATGATCGGAA+TGG - chr3.3:89670886-89670905 MS.gene055455:CDS 35.0%
! TAAAGTGTCCGAGTATGTTA+AGG - chr3.3:89670919-89670938 MS.gene055455:CDS 35.0%
! TTCCCAGAAACATTGATGAT+CGG - chr3.3:89670881-89670900 MS.gene055455:CDS 35.0%
!!! GAAACATTTTGGTATTGACC+TGG + chr3.3:89670974-89670993 None:intergenic 35.0%
AACAGATGTGGAAGAACTTG+GGG - chr3.3:89671180-89671199 MS.gene055455:CDS 40.0%
AGGGAATAGTCAACATGACT+GGG + chr3.3:89670749-89670768 None:intergenic 40.0%
CAAAAGGTTGCTAGAAACGA+GGG - chr3.3:89671313-89671332 MS.gene055455:CDS 40.0%
CAGTCAAAGGTTCAAACAAC+GGG + chr3.3:89671234-89671253 None:intergenic 40.0%
GAAAGAACTTGAAGCAGATC+CGG - chr3.3:89671255-89671274 MS.gene055455:CDS 40.0%
GAGCTTAAAAGCTTAACAGC+CGG + chr3.3:89671277-89671296 None:intergenic 40.0%
GGACTGGATGAAATCTTGTT+TGG - chr3.3:89671201-89671220 MS.gene055455:CDS 40.0%
GTGATTGGGAATGTACTTCA+TGG + chr3.3:89671014-89671033 None:intergenic 40.0%
TAAAATGAGGATCGGGAAAC+AGG + chr3.3:89671069-89671088 None:intergenic 40.0%
TCAACATGACTGGGTGATAA+CGG + chr3.3:89670740-89670759 None:intergenic 40.0%
TCCAAAACCACAGCCAATAT+CGG + chr3.3:89670834-89670853 None:intergenic 40.0%
! ACCAAAATGTTTCTGTGGTG+CGG - chr3.3:89670981-89671000 MS.gene055455:CDS 40.0%
! GCTTTTGTTCTTGAGATTGG+TGG - chr3.3:89671142-89671161 MS.gene055455:CDS 40.0%
! TCTTTAAGGGTAGCAAATCC+AGG - chr3.3:89670953-89670972 MS.gene055455:CDS 40.0%
!! AAAGAACTGAGGGTAATGGA+GGG + chr3.3:89670768-89670787 None:intergenic 40.0%
!!! ATATTGGCTGTGGTTTTGGA+GGG - chr3.3:89670834-89670853 MS.gene055455:CDS 40.0%
AAACGAGGGACAAACTTTCC+AGG - chr3.3:89671327-89671346 MS.gene055455:CDS 45.0%
ACTATCAGCTTTCTCAGACG+AGG + chr3.3:89670792-89670811 None:intergenic 45.0%
AGGGAAAGAACTGAGGGTAA+TGG + chr3.3:89670772-89670791 None:intergenic 45.0%
CCAAAAGGTTGCTAGAAACG+AGG - chr3.3:89671312-89671331 MS.gene055455:CDS 45.0%
CTATCAGCTTTCTCAGACGA+GGG + chr3.3:89670791-89670810 None:intergenic 45.0%
GAGGGAATAGTCAACATGAC+TGG + chr3.3:89670750-89670769 None:intergenic 45.0%
GTTGAATTTCCACCAGTCTC+AGG + chr3.3:89670629-89670648 None:intergenic 45.0%
TTAAGCTCTGCCACTGAAGA+AGG - chr3.3:89671289-89671308 MS.gene055455:CDS 45.0%
! AAGTTTGCCGATATTGGCTG+TGG - chr3.3:89670824-89670843 MS.gene055455:CDS 45.0%
! GAAAGAACTGAGGGTAATGG+AGG + chr3.3:89670769-89670788 None:intergenic 45.0%
! TCCGCACCACAGAAACATTT+TGG + chr3.3:89670985-89671004 None:intergenic 45.0%
!! AACCTTTTGGCCTTCTTCAG+TGG + chr3.3:89671302-89671321 None:intergenic 45.0%
!! CAATGTTTCTGGGAACAGAG+TGG + chr3.3:89670876-89670895 None:intergenic 45.0%
!!! CCTCGTTTCTAGCAACCTTT+TGG + chr3.3:89671315-89671334 None:intergenic 45.0%
!!! GATATTGGCTGTGGTTTTGG+AGG - chr3.3:89670833-89670852 MS.gene055455:CDS 45.0%
AAGAGAAGAACCATCGCCGT+CGG - chr3.3:89671089-89671108 MS.gene055455:CDS 50.0%
ATGTGGAAGAACTTGGGGAC+TGG - chr3.3:89671185-89671204 MS.gene055455:CDS 50.0%
CAATGCGTCTGTATACAGCC+TGG + chr3.3:89671348-89671367 None:intergenic 50.0%
CAGACGAGGGAAAGAACTGA+GGG + chr3.3:89670778-89670797 None:intergenic 50.0%
GGAAATGAGAGTCACTGAGC+GGG + chr3.3:89670712-89670731 None:intergenic 50.0%
GGGAAATGAGAGTCACTGAG+CGG + chr3.3:89670713-89670732 None:intergenic 50.0%
TCAGACGAGGGAAAGAACTG+AGG + chr3.3:89670779-89670798 None:intergenic 50.0%
TGCCACTGAAGAAGGCCAAA+AGG - chr3.3:89671297-89671316 MS.gene055455:CDS 50.0%
!! AGAATGGGCTGATAACCCGA+CGG + chr3.3:89671108-89671127 None:intergenic 50.0%
!! GCCGATATTGGCTGTGGTTT+TGG - chr3.3:89670830-89670849 MS.gene055455:CDS 50.0%
AGAGAAGAACCATCGCCGTC+GGG - chr3.3:89671090-89671109 MS.gene055455:CDS 55.0%
!! GACTGGGTGATAACGGCACA+GGG + chr3.3:89670733-89670752 None:intergenic 55.0%
!! GCTCGATAGAAGCGCTTTCG+AGG + chr3.3:89670674-89670693 None:intergenic 55.0%
!! TGACTGGGTGATAACGGCAC+AGG + chr3.3:89670734-89670753 None:intergenic 55.0%
GGCTGATAACCCGACGGCGA+TGG + chr3.3:89671102-89671121 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr3.3 gene 89670623 89671390 89670623 ID=MS.gene055455
chr3.3 mRNA 89670623 89671390 89670623 ID=MS.gene055455.t1;Parent=MS.gene055455
chr3.3 exon 89670623 89671390 89670623 ID=MS.gene055455.t1.exon1;Parent=MS.gene055455.t1
chr3.3 CDS 89670623 89671390 89670623 ID=cds.MS.gene055455.t1;Parent=MS.gene055455.t1
Gene Sequence

>MS.gene055455

ATGCCTGAGACTGGTGGAAATTCAACATTCAGTAAGTCAACAGGATTGCCTCGAAAGCGCTTCTATCGAGCACGAGCACACAGCAACCCGCTCAGTGACTCTCATTTCCCTGTGCCGTTATCACCCAGTCATGTTGACTATTCCCTCCATTACCCTCAGTTCTTTCCCTCGTCTGAGAAAGCTGATAGTTGCAAAAAGATTAAGTTTGCCGATATTGGCTGTGGTTTTGGAGGGTTGCTCATCAGTCTTTCCACTCTGTTCCCAGAAACATTGATGATCGGAATGGAACTTAGAGATAAAGTGTCCGAGTATGTTAAGGAACGAATTTTATCTTTAAGGGTAGCAAATCCAGGTCAATACCAAAATGTTTCTGTGGTGCGGACTAACTCCATGAAGTACATTCCCAATCACTTTGAGAAAGCACAACTCTCAAAGATGTTTTTCCTGTTTCCCGATCCTCATTTTAAAGAGAAGAACCATCGCCGTCGGGTTATCAGCCCATTCTTACTAGATGAGTATGCTTTTGTTCTTGAGATTGGTGGAATTATATACACAATAACAGATGTGGAAGAACTTGGGGACTGGATGAAATCTTGTTTGGAGAATCACCCGTTGTTTGAACCTTTGACTGAGAAAGAACTTGAAGCAGATCCGGCTGTTAAGCTTTTAAGCTCTGCCACTGAAGAAGGCCAAAAGGTTGCTAGAAACGAGGGACAAACTTTCCAGGCTGTATACAGACGCATTGCAGCATCTGATCAAATATCCTAG

Protein sequence

>MS.gene055455.t1

MPETGGNSTFSKSTGLPRKRFYRARAHSNPLSDSHFPVPLSPSHVDYSLHYPQFFPSSEKADSCKKIKFADIGCGFGGLLISLSTLFPETLMIGMELRDKVSEYVKERILSLRVANPGQYQNVSVVRTNSMKYIPNHFEKAQLSKMFFLFPDPHFKEKNHRRRVISPFLLDEYAFVLEIGGIIYTITDVEELGDWMKSCLENHPLFEPLTEKELEADPAVKLLSSATEEGQKVARNEGQTFQAVYRRIAASDQIS