AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene63029

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene63029.t1 MTR_1g029850 97.083 240 7 0 13 252 89 328 5.66e-176 487
MS.gene63029.t1 MTR_3g088560 71.032 252 69 3 1 250 19 268 1.42e-126 360
MS.gene63029.t1 MTR_3g088560 70.238 252 73 2 1 250 2 253 4.39e-125 355
MS.gene63029.t1 MTR_3g088560 72.083 240 65 2 13 250 84 323 8.11e-122 350
MS.gene63029.t1 MTR_3g088560 72.139 201 54 2 52 250 1 201 7.17e-102 295
MS.gene63029.t1 MTR_3g061090 49.160 238 121 0 15 252 19 256 5.87e-81 244
MS.gene63029.t1 MTR_3g061090 49.160 238 121 0 15 252 91 328 1.70e-79 243
MS.gene63029.t1 MTR_5g096700 42.739 241 136 2 13 252 31 270 1.42e-67 210
MS.gene63029.t1 MTR_5g096700 42.739 241 136 2 13 252 90 329 2.08e-66 209
MS.gene63029.t1 MTR_5g096790 37.991 229 126 4 24 248 106 322 3.87e-45 154
MS.gene63029.t1 MTR_7g094490 29.448 163 102 3 66 215 182 344 4.64e-11 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene63029.t1 AT1G21780 69.167 240 74 0 13 252 85 324 1.69e-124 357
MS.gene63029.t1 AT1G21780 69.167 240 74 0 13 252 85 324 1.69e-124 357
MS.gene63029.t1 AT1G55760 47.059 238 125 1 15 252 91 327 4.93e-76 234
MS.gene63029.t1 AT2G39760 30.719 153 95 1 74 215 179 331 4.30e-13 68.2
MS.gene63029.t1 AT2G39760 30.719 153 95 1 74 215 179 331 4.30e-13 68.2
MS.gene63029.t1 AT2G39760 30.719 153 95 1 74 215 179 331 4.53e-13 68.2
MS.gene63029.t1 AT2G39760 30.719 153 95 1 74 215 179 331 1.25e-12 67.4

Find 54 sgRNAs with CRISPR-Local

Find 67 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGCAACCTCTCCTGTGTTTC+AGG 0.153472 1.2:+15642940 MS.gene63029:CDS
CAATAAAACCCGAAGATTTC+TGG 0.200729 1.2:+15643065 MS.gene63029:CDS
TTCAAGAAGTGCTTACAATT+TGG 0.210270 1.2:+15643347 MS.gene63029:CDS
AGTGCTTACAATTTGGAAAT+AGG 0.211006 1.2:+15643354 MS.gene63029:CDS
TTCGCATTCTTATTTGATTT+CGG 0.290853 1.2:+15643250 MS.gene63029:CDS
TTCATGAACTGTAGTATTAC+AGG 0.296600 1.2:-15642373 None:intergenic
CTGTGCTTCCAGAAATCTTC+GGG 0.311859 1.2:-15643073 None:intergenic
AAGCACAGGCTGGCTTTGCT+TGG 0.389834 1.2:+15643088 MS.gene63029:CDS
CCTGTGCTTCCAGAAATCTT+CGG 0.410951 1.2:-15643074 None:intergenic
CTTTCTTCAACTTGTGCAGC+TGG 0.413291 1.2:-15643222 None:intergenic
GAACCTGTGATGACTTTGTC+TGG 0.430022 1.2:+15642406 MS.gene63029:CDS
AACCGCAGATGGCACACTTA+AGG 0.459877 1.2:+15642898 MS.gene63029:CDS
TGATACGAGGCCTGAAACAC+AGG 0.466490 1.2:-15642950 None:intergenic
ATCAGATGGCCATATGGAAC+TGG 0.471880 1.2:-15642786 None:intergenic
TCGAGAGGCTTAATGAGGCC+TGG 0.483089 1.2:+15643194 MS.gene63029:CDS
CCTGTGGATACTACATTCCT+TGG 0.490016 1.2:+15642429 MS.gene63029:CDS
GTATCTCAGAAGGGCCGTGC+AGG 0.498716 1.2:-15643032 None:intergenic
CCGAGTTAAGATCTTCAAGT+AGG 0.498960 1.2:-15643162 None:intergenic
AGATTTCTGGAAGCACAGGC+TGG 0.511646 1.2:+15643078 MS.gene63029:CDS
CTTGTGACATGTCTTCTATG+TGG 0.517852 1.2:-15643006 None:intergenic
GTAATACTACAGTTCATGAA+AGG 0.521613 1.2:+15642376 MS.gene63029:CDS
CCTACTTGAAGATCTTAACT+CGG 0.524632 1.2:+15643162 MS.gene63029:CDS
CCGAAGATTTCTGGAAGCAC+AGG 0.532000 1.2:+15643074 MS.gene63029:CDS
TTCCATACATGTATCTCAGA+AGG 0.534119 1.2:-15643042 None:intergenic
GTGGAGACGCCAGTTCCATA+TGG 0.542653 1.2:+15642777 MS.gene63029:CDS
CTGAAACACAGGAGAGGTTG+CGG 0.553064 1.2:-15642939 None:intergenic
CAGCTGCACAAGTTGAAGAA+AGG 0.554405 1.2:+15643223 MS.gene63029:CDS
GCCCTTCTGAGATACATGTA+TGG 0.555410 1.2:+15643040 MS.gene63029:CDS
AGTTCCATATGGCCATCTGA+TGG 0.557376 1.2:+15642788 MS.gene63029:CDS
CAAGCATACGAGAGAGGCAT+CGG 0.563620 1.2:-15642844 None:intergenic
TAATACTACAGTTCATGAAA+GGG 0.564315 1.2:+15642377 MS.gene63029:CDS
TGATGACTTTGTCTGGCCTG+TGG 0.574666 1.2:+15642413 MS.gene63029:CDS
AATTAGAGACTCACATTCAG+AGG 0.576553 1.2:-15642495 None:intergenic
AGAGACTCACATTCAGAGGA+TGG 0.576688 1.2:-15642491 None:intergenic
CTCACTATTATAACCGCAGA+TGG 0.582345 1.2:+15642887 MS.gene63029:CDS
GTATGGTGAAATGCTGATAG+AGG 0.586515 1.2:+15642335 None:intergenic
CATTCAGAGGATGGATCTTG+AGG 0.589078 1.2:-15642482 None:intergenic
TCATGAACTGTAGTATTACA+GGG 0.591070 1.2:-15642372 None:intergenic
CATCAATAATCAAGCGACCA+AGG 0.591316 1.2:-15642446 None:intergenic
CTTGTGCAGCTGGTACAACC+AGG 0.594842 1.2:-15643212 None:intergenic
CTACTTGAAGATCTTAACTC+GGG 0.596940 1.2:+15643163 MS.gene63029:CDS
CCAAGGAATGTAGTATCCAC+AGG 0.598731 1.2:-15642429 None:intergenic
TGTTCTCGAGAGGCTTAATG+AGG 0.608295 1.2:+15643189 MS.gene63029:CDS
TGATCTCAAAGACGCATGCG+AGG 0.608738 1.2:+15643135 MS.gene63029:CDS
TTCACTGCTGCTGTGATACG+AGG 0.620310 1.2:-15642963 None:intergenic
AGGCCAGACAAAGTCATCAC+AGG 0.625083 1.2:-15642409 None:intergenic
AGCCTTAAGTGTGCCATCTG+CGG 0.628227 1.2:-15642900 None:intergenic
CTTTGTCAAGCATACGAGAG+AGG 0.628419 1.2:-15642850 None:intergenic
TCCATACATGTATCTCAGAA+GGG 0.640688 1.2:-15643041 None:intergenic
ACTCGGGAAATGTTCTCGAG+AGG 0.641157 1.2:+15643179 MS.gene63029:CDS
GCAGCTAATAAGTACGACAT+CGG 0.686940 1.2:+15643112 MS.gene63029:CDS
CATCTGCGGTTATAATAGTG+AGG 0.691773 1.2:-15642886 None:intergenic
CGAGGCCTGAAACACAGGAG+AGG 0.710966 1.2:-15642945 None:intergenic
CATGTCACAAGAATCCTGCA+CGG 0.721067 1.2:+15643018 MS.gene63029:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ACAAATAGATAGTTATAGAA+CGG - chr1.2:15642607-15642626 None:intergenic 20.0%
!! TGATGTAACTAGATATAATA+TGG + chr1.2:15642554-15642573 MS.gene63029:intron 20.0%
!!! ATTGTTTTGAGTTACTTAAT+AGG + chr1.2:15642642-15642661 MS.gene63029:intron 20.0%
! TAATACTACAGTTCATGAAA+GGG + chr1.2:15642377-15642396 MS.gene63029:CDS 25.0%
!! TTCGCATTCTTATTTGATTT+CGG + chr1.2:15643250-15643269 MS.gene63029:CDS 25.0%
ACAATTTAACACTAGTTCAG+AGG - chr1.2:15642714-15642733 None:intergenic 30.0%
GTAATACTACAGTTCATGAA+AGG + chr1.2:15642376-15642395 MS.gene63029:CDS 30.0%
TCATGAACTGTAGTATTACA+GGG - chr1.2:15642375-15642394 None:intergenic 30.0%
TTCATGAACTGTAGTATTAC+AGG - chr1.2:15642376-15642395 None:intergenic 30.0%
!! TTCAAGAAGTGCTTACAATT+TGG + chr1.2:15643347-15643366 MS.gene63029:CDS 30.0%
AATTAGAGACTCACATTCAG+AGG - chr1.2:15642498-15642517 None:intergenic 35.0%
CAATAAAACCCGAAGATTTC+TGG + chr1.2:15643065-15643084 MS.gene63029:CDS 35.0%
CCTACTTGAAGATCTTAACT+CGG + chr1.2:15643162-15643181 MS.gene63029:CDS 35.0%
CTACTTGAAGATCTTAACTC+GGG + chr1.2:15643163-15643182 MS.gene63029:CDS 35.0%
TCCATACATGTATCTCAGAA+GGG - chr1.2:15643044-15643063 None:intergenic 35.0%
TTCCATACATGTATCTCAGA+AGG - chr1.2:15643045-15643064 None:intergenic 35.0%
CATCAATAATCAAGCGACCA+AGG - chr1.2:15642449-15642468 None:intergenic 40.0%
CATCTGCGGTTATAATAGTG+AGG - chr1.2:15642889-15642908 None:intergenic 40.0%
CCGAGTTAAGATCTTCAAGT+AGG - chr1.2:15643165-15643184 None:intergenic 40.0%
CTCACTATTATAACCGCAGA+TGG + chr1.2:15642887-15642906 MS.gene63029:CDS 40.0%
CTTGTGACATGTCTTCTATG+TGG - chr1.2:15643009-15643028 None:intergenic 40.0%
GCAGCTAATAAGTACGACAT+CGG + chr1.2:15643112-15643131 MS.gene63029:CDS 40.0%
! GAATGCAGTTTTCCATCAGA+TGG - chr1.2:15642803-15642822 None:intergenic 40.0%
! TTTTCCATCAGATGGCCATA+TGG - chr1.2:15642795-15642814 None:intergenic 40.0%
ACTAGTTCAGAGGTTCTCTG+AGG - chr1.2:15642704-15642723 None:intergenic 45.0%
AGAGACTCACATTCAGAGGA+TGG - chr1.2:15642494-15642513 None:intergenic 45.0%
AGTTCCATATGGCCATCTGA+TGG + chr1.2:15642788-15642807 MS.gene63029:CDS 45.0%
ATCAGATGGCCATATGGAAC+TGG - chr1.2:15642789-15642808 None:intergenic 45.0%
CATGTCACAAGAATCCTGCA+CGG + chr1.2:15643018-15643037 MS.gene63029:CDS 45.0%
CATTCAGAGGATGGATCTTG+AGG - chr1.2:15642485-15642504 None:intergenic 45.0%
CCAAGGAATGTAGTATCCAC+AGG - chr1.2:15642432-15642451 None:intergenic 45.0%
CCTGTGCTTCCAGAAATCTT+CGG - chr1.2:15643077-15643096 None:intergenic 45.0%
CCTGTGGATACTACATTCCT+TGG + chr1.2:15642429-15642448 MS.gene63029:CDS 45.0%
CTAGTTCAGAGGTTCTCTGA+GGG - chr1.2:15642703-15642722 None:intergenic 45.0%
CTGTGCTTCCAGAAATCTTC+GGG - chr1.2:15643076-15643095 None:intergenic 45.0%
CTTTCTTCAACTTGTGCAGC+TGG - chr1.2:15643225-15643244 None:intergenic 45.0%
CTTTGTCAAGCATACGAGAG+AGG - chr1.2:15642853-15642872 None:intergenic 45.0%
GAACCTGTGATGACTTTGTC+TGG + chr1.2:15642406-15642425 MS.gene63029:CDS 45.0%
TGTTCTCGAGAGGCTTAATG+AGG + chr1.2:15643189-15643208 MS.gene63029:CDS 45.0%
! CAGCTGCACAAGTTGAAGAA+AGG + chr1.2:15643223-15643242 MS.gene63029:CDS 45.0%
!! GCCCTTCTGAGATACATGTA+TGG + chr1.2:15643040-15643059 MS.gene63029:CDS 45.0%
!!! GTTTTTTCGTCACGCAGACA+GGG + chr1.2:15643306-15643325 MS.gene63029:CDS 45.0%
!!! TTTTTTCCGCCTGAGAGTCA+GGG + chr1.2:15642755-15642774 MS.gene63029:intron 45.0%
!!! TTTTTTTCCGCCTGAGAGTC+AGG + chr1.2:15642754-15642773 MS.gene63029:intron 45.0%
AACCGCAGATGGCACACTTA+AGG + chr1.2:15642898-15642917 MS.gene63029:CDS 50.0%
ACTCGGGAAATGTTCTCGAG+AGG + chr1.2:15643179-15643198 MS.gene63029:CDS 50.0%
AGCCTTAAGTGTGCCATCTG+CGG - chr1.2:15642903-15642922 None:intergenic 50.0%
AGGCCAGACAAAGTCATCAC+AGG - chr1.2:15642412-15642431 None:intergenic 50.0%
CTGAAACACAGGAGAGGTTG+CGG - chr1.2:15642942-15642961 None:intergenic 50.0%
TGATACGAGGCCTGAAACAC+AGG - chr1.2:15642953-15642972 None:intergenic 50.0%
TGATCTCAAAGACGCATGCG+AGG + chr1.2:15643135-15643154 MS.gene63029:CDS 50.0%
TGATGACTTTGTCTGGCCTG+TGG + chr1.2:15642413-15642432 MS.gene63029:CDS 50.0%
TTCACTGCTGCTGTGATACG+AGG - chr1.2:15642966-15642985 None:intergenic 50.0%
! AGATTTCTGGAAGCACAGGC+TGG + chr1.2:15643078-15643097 MS.gene63029:CDS 50.0%
! CAAGCATACGAGAGAGGCAT+CGG - chr1.2:15642847-15642866 None:intergenic 50.0%
! CCGAAGATTTCTGGAAGCAC+AGG + chr1.2:15643074-15643093 MS.gene63029:CDS 50.0%
!!! CGTTTTTTCGTCACGCAGAC+AGG + chr1.2:15643305-15643324 MS.gene63029:CDS 50.0%
CGCAACCTCTCCTGTGTTTC+AGG + chr1.2:15642940-15642959 MS.gene63029:CDS 55.0%
CTTGTGCAGCTGGTACAACC+AGG - chr1.2:15643215-15643234 None:intergenic 55.0%
GTGGAGACGCCAGTTCCATA+TGG + chr1.2:15642777-15642796 MS.gene63029:CDS 55.0%
TCGAGAGGCTTAATGAGGCC+TGG + chr1.2:15643194-15643213 MS.gene63029:CDS 55.0%
!! AAGCACAGGCTGGCTTTGCT+TGG + chr1.2:15643088-15643107 MS.gene63029:CDS 55.0%
CGAGGCCTGAAACACAGGAG+AGG - chr1.2:15642948-15642967 None:intergenic 60.0%
GTATCTCAGAAGGGCCGTGC+AGG - chr1.2:15643035-15643054 None:intergenic 60.0%
TCTCCACCCTGACTCTCAGG+CGG - chr1.2:15642764-15642783 None:intergenic 60.0%
TTTCCGCCTGAGAGTCAGGG+TGG + chr1.2:15642758-15642777 MS.gene63029:intron 60.0%
GCGTCTCCACCCTGACTCTC+AGG - chr1.2:15642767-15642786 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 15642345 15643375 15642345 ID=MS.gene63029
chr1.2 mRNA 15642345 15643375 15642345 ID=MS.gene63029.t1;Parent=MS.gene63029
chr1.2 exon 15642345 15642503 15642345 ID=MS.gene63029.t1.exon1;Parent=MS.gene63029.t1
chr1.2 CDS 15642345 15642503 15642345 ID=cds.MS.gene63029.t1;Parent=MS.gene63029.t1
chr1.2 exon 15642776 15643375 15642776 ID=MS.gene63029.t1.exon2;Parent=MS.gene63029.t1
chr1.2 CDS 15642776 15643375 15642776 ID=cds.MS.gene63029.t1;Parent=MS.gene63029.t1
Gene Sequence

>MS.gene63029

ATGCTGATAGAGGTTGTATTTATATGTCCCTGTAATACTACAGTTCATGAAAGGGTGCTTAGAACCTGTGATGACTTTGTCTGGCCTGTGGATACTACATTCCTTGGTCGCTTGATTATTGATGTTGAATTTCTTGACCTCAAGATCCATCCTCTGAATGTGAGTCTCTAATTTGTGTTATCATCATCACTATGTTAATAGTACAATATTGATGTAACTAGATATAATATGGCTTATTTGTAAATATATTGTATTTTTTCCGTTCTATAACTATCTATTTGTATATAAAATACTAGTATTGTTTTGAGTTACTTAATAGGATATTGTGTTTTTTGAATTTGAATAGCTCGCATTGCCCTCAGAGAACCTCTGAACTAGTGTTAAATTGTTGTTTCTTAACATTTGATCTTTTTTTTCCGCCTGAGAGTCAGGGTGGAGACGCCAGTTCCATATGGCCATCTGATGGAAAACTGCATTCTGTTGCAACTCAAAACACTCTCCGATGCCTCTCTCGTATGCTTGACAAAGCTATACATGTTGACCTCACTATTATAACCGCAGATGGCACACTTAAGGCTCATAAAGCAGTTATGTCCGCAACCTCTCCTGTGTTTCAGGCCTCGTATCACAGCAGCAGTGAAGACAAAGAGTCGTCTACAATCCACATAGAAGACATGTCACAAGAATCCTGCACGGCCCTTCTGAGATACATGTATGGAACAATAAAACCCGAAGATTTCTGGAAGCACAGGCTGGCTTTGCTTGGAGCAGCTAATAAGTACGACATCGGTGATCTCAAAGACGCATGCGAGGAAAGCCTACTTGAAGATCTTAACTCGGGAAATGTTCTCGAGAGGCTTAATGAGGCCTGGTTGTACCAGCTGCACAAGTTGAAGAAAGGATGCTTCGCATTCTTATTTGATTTCGGTAAGATATATGATGTTAGAGATGAAATAAATACGTTTTTTCGTCACGCAGACAGGGAACTCATGCTAGAGATGTTTCAAGAAGTGCTTACAATTTGGAAATAG
Protein sequence

>MS.gene63029.t1

MLIEVVFICPCNTTVHERVLRTCDDFVWPVDTTFLGRLIIDVEFLDLKIHPLNGGDASSIWPSDGKLHSVATQNTLRCLSRMLDKAIHVDLTIITADGTLKAHKAVMSATSPVFQASYHSSSEDKESSTIHIEDMSQESCTALLRYMYGTIKPEDFWKHRLALLGAANKYDIGDLKDACEESLLEDLNSGNVLERLNEAWLYQLHKLKKGCFAFLFDFGKIYDVRDEINTFFRHADRELMLEMFQEVLTIWK