AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene055213

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055213.t1 MTR_7g063220 90.411 146 6 1 1 146 1 138 9.35e-94 267
MS.gene055213.t1 MTR_4g064873 42.208 154 57 6 24 146 21 173 2.33e-21 85.1
MS.gene055213.t1 MTR_1g075430 77.500 40 9 0 19 58 13 52 7.44e-17 73.6
MS.gene055213.t1 MTR_3g068095 68.000 50 16 0 24 73 55 104 8.61e-16 72.0
MS.gene055213.t1 MTR_2g076060 50.000 70 24 2 3 61 18 87 5.13e-15 69.3
MS.gene055213.t1 MTR_4g021270 66.667 42 14 0 24 65 59 100 1.46e-14 69.3
MS.gene055213.t1 MTR_5g014400 67.500 40 13 0 24 63 80 119 8.08e-14 66.6
MS.gene055213.t1 MTR_1g044225 65.000 40 14 0 24 63 26 65 8.54e-14 65.1
MS.gene055213.t1 MTR_1g070250 61.364 44 17 0 21 64 35 78 9.68e-14 65.5
MS.gene055213.t1 MTR_1g070265 64.286 42 13 1 15 56 28 67 1.25e-13 65.1
MS.gene055213.t1 MTR_5g080660 74.359 39 10 0 24 62 47 85 1.34e-13 65.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055213.t1 AT3G09290 55.556 72 23 1 1 63 1 72 5.90e-19 79.0
MS.gene055213.t1 AT3G53820 34.483 145 56 4 15 139 13 138 3.84e-17 73.2
MS.gene055213.t1 AT2G37740 47.826 69 35 1 24 92 37 104 3.06e-15 71.2
MS.gene055213.t1 AT5G06070 80.556 36 7 0 24 59 53 88 5.34e-15 69.3
MS.gene055213.t1 AT5G43540 39.252 107 59 2 26 131 35 136 5.49e-14 65.1
MS.gene055213.t1 AT2G42410 55.172 58 24 1 20 75 43 100 7.41e-14 66.2
MS.gene055213.t1 AT2G42410 55.172 58 24 1 20 75 43 100 7.41e-14 66.2
MS.gene055213.t1 AT2G42410 55.172 58 24 1 20 75 69 126 1.04e-13 66.2
MS.gene055213.t1 AT3G23130 74.286 35 9 0 24 58 45 79 1.35e-13 65.5
MS.gene055213.t1 AT4G17810 36.154 130 64 4 24 134 44 173 3.54e-12 61.2
MS.gene055213.t1 AT4G17810 76.667 30 7 0 24 53 44 73 1.98e-11 59.7

Find 32 sgRNAs with CRISPR-Local

Find 35 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGAAGAAAATTTGCTTTCTT+TGG 0.082851 7.4:+40857935 MS.gene055213:CDS
CTTATTTGGTCAGATTTATT+AGG 0.139528 7.4:-40857774 None:intergenic
GGTCAGATTTATTAGGGTTT+TGG 0.161658 7.4:-40857767 None:intergenic
CCGAATCTGCTTGATCATTA+AGG 0.225977 7.4:-40857974 None:intergenic
GCTTGGCTCTATCTCTTCTA+TGG 0.291132 7.4:-40857896 None:intergenic
CGTCAGAGCTCCATCTTATT+TGG 0.314582 7.4:-40857788 None:intergenic
TTATTTGGTCAGATTTATTA+GGG 0.342818 7.4:-40857773 None:intergenic
GTTCTTCATTTGTTGACATA+AGG 0.348978 7.4:+40858054 MS.gene055213:CDS
TTCTTCATTTGTTGACATAA+GGG 0.367087 7.4:+40858055 MS.gene055213:CDS
AAGGGGATCCAGTGGTGTTA+TGG 0.404055 7.4:+40858073 MS.gene055213:CDS
CTGACGACCCAGGTCAAGTT+AGG 0.412121 7.4:+40857805 MS.gene055213:CDS
CCTTAATGATCAAGCAGATT+CGG 0.423213 7.4:+40857974 MS.gene055213:CDS
GGAAGATTGTTGTTTGAGCT+TGG 0.430049 7.4:-40857913 None:intergenic
TTCTCTAATGCACAAGCATT+AGG 0.444472 7.4:+40857858 MS.gene055213:CDS
TTAGACCTTGAGCTTAGGTT+AGG 0.446249 7.4:+40858125 MS.gene055213:CDS
GTGATTTAGACCTTGAGCTT+AGG 0.467678 7.4:+40858120 MS.gene055213:CDS
AGAGAATCATGAAACTCAAA+GGG 0.481266 7.4:+40857998 MS.gene055213:CDS
ATAAATCTGACCAAATAAGA+TGG 0.504424 7.4:+40857778 MS.gene055213:CDS
TAGGTTAGGTTATCAGCCAA+TGG 0.520042 7.4:+40858139 MS.gene055213:CDS
CTCTTCTATGGATATTCATG+TGG 0.536618 7.4:-40857884 None:intergenic
GAATAAGACCTAACTTGACC+TGG 0.536916 7.4:-40857813 None:intergenic
AAGAGAATCATGAAACTCAA+AGG 0.543574 7.4:+40857997 MS.gene055213:CDS
TCTTCATTTGTTGACATAAG+GGG 0.545273 7.4:+40858056 MS.gene055213:CDS
CCAGTGGTGTTATGGCTCAA+AGG 0.569482 7.4:+40858081 MS.gene055213:CDS
CCTTTGAGCCATAACACCAC+TGG 0.579057 7.4:-40858081 None:intergenic
CTCAATGTTGATGAATCCAT+TGG 0.590079 7.4:-40858155 None:intergenic
TCTAATGCACAAGCATTAGG+AGG 0.629486 7.4:+40857861 MS.gene055213:CDS
GATAACCTAACCTAAGCTCA+AGG 0.631813 7.4:-40858130 None:intergenic
AGATGGAGCTCTGACGACCC+AGG 0.637866 7.4:+40857795 MS.gene055213:CDS
AATAAGACCTAACTTGACCT+GGG 0.655728 7.4:-40857812 None:intergenic
GTTGACATAAGGGGATCCAG+TGG 0.671698 7.4:+40858065 MS.gene055213:CDS
GAGAATCATGAAACTCAAAG+GGG 0.747840 7.4:+40857999 MS.gene055213:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTATTTGGTCAGATTTATTA+GGG - chr7.4:40857776-40857795 None:intergenic 20.0%
! ATAAATCTGACCAAATAAGA+TGG + chr7.4:40857778-40857797 MS.gene055213:CDS 25.0%
! CTTATTTGGTCAGATTTATT+AGG - chr7.4:40857777-40857796 None:intergenic 25.0%
!! CAAAGAAAGCAAATTTTCTT+CGG - chr7.4:40857937-40857956 None:intergenic 25.0%
!! TTCTTCATTTGTTGACATAA+GGG + chr7.4:40858055-40858074 MS.gene055213:CDS 25.0%
AAGAGAATCATGAAACTCAA+AGG + chr7.4:40857997-40858016 MS.gene055213:CDS 30.0%
AGAGAATCATGAAACTCAAA+GGG + chr7.4:40857998-40858017 MS.gene055213:CDS 30.0%
! CGAAGAAAATTTGCTTTCTT+TGG + chr7.4:40857935-40857954 MS.gene055213:CDS 30.0%
! GTCAGATTTATTAGGGTTTT+GGG - chr7.4:40857769-40857788 None:intergenic 30.0%
! GTTCTTCATTTGTTGACATA+AGG + chr7.4:40858054-40858073 MS.gene055213:CDS 30.0%
! TCTTCATTTGTTGACATAAG+GGG + chr7.4:40858056-40858075 MS.gene055213:CDS 30.0%
AATAAGACCTAACTTGACCT+GGG - chr7.4:40857815-40857834 None:intergenic 35.0%
CCTTAATGATCAAGCAGATT+CGG + chr7.4:40857974-40857993 MS.gene055213:CDS 35.0%
CTCTTCTATGGATATTCATG+TGG - chr7.4:40857887-40857906 None:intergenic 35.0%
GAGAATCATGAAACTCAAAG+GGG + chr7.4:40857999-40858018 MS.gene055213:CDS 35.0%
TTCTCTAATGCACAAGCATT+AGG + chr7.4:40857858-40857877 MS.gene055213:CDS 35.0%
! CTCAATGTTGATGAATCCAT+TGG - chr7.4:40858158-40858177 None:intergenic 35.0%
! GGTCAGATTTATTAGGGTTT+TGG - chr7.4:40857770-40857789 None:intergenic 35.0%
!! TCTTGTACTTTTTGCAAGAG+AGG + chr7.4:40857834-40857853 MS.gene055213:CDS 35.0%
CCGAATCTGCTTGATCATTA+AGG - chr7.4:40857977-40857996 None:intergenic 40.0%
GAATAAGACCTAACTTGACC+TGG - chr7.4:40857816-40857835 None:intergenic 40.0%
GATAACCTAACCTAAGCTCA+AGG - chr7.4:40858133-40858152 None:intergenic 40.0%
GTGATTTAGACCTTGAGCTT+AGG + chr7.4:40858120-40858139 MS.gene055213:CDS 40.0%
TAGGTTAGGTTATCAGCCAA+TGG + chr7.4:40858139-40858158 MS.gene055213:CDS 40.0%
TCTAATGCACAAGCATTAGG+AGG + chr7.4:40857861-40857880 MS.gene055213:CDS 40.0%
TTAGACCTTGAGCTTAGGTT+AGG + chr7.4:40858125-40858144 MS.gene055213:CDS 40.0%
!! GGAAGATTGTTGTTTGAGCT+TGG - chr7.4:40857916-40857935 None:intergenic 40.0%
CGTCAGAGCTCCATCTTATT+TGG - chr7.4:40857791-40857810 None:intergenic 45.0%
!! GCTTGGCTCTATCTCTTCTA+TGG - chr7.4:40857899-40857918 None:intergenic 45.0%
CCTTTGAGCCATAACACCAC+TGG - chr7.4:40858084-40858103 None:intergenic 50.0%
GTTGACATAAGGGGATCCAG+TGG + chr7.4:40858065-40858084 MS.gene055213:CDS 50.0%
! AAGGGGATCCAGTGGTGTTA+TGG + chr7.4:40858073-40858092 MS.gene055213:CDS 50.0%
!! CCAGTGGTGTTATGGCTCAA+AGG + chr7.4:40858081-40858100 MS.gene055213:CDS 50.0%
CTGACGACCCAGGTCAAGTT+AGG + chr7.4:40857805-40857824 MS.gene055213:CDS 55.0%
! AGATGGAGCTCTGACGACCC+AGG + chr7.4:40857795-40857814 MS.gene055213:CDS 60.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 40857756 40858196 40857756 ID=MS.gene055213
chr7.4 mRNA 40857756 40858196 40857756 ID=MS.gene055213.t1;Parent=MS.gene055213
chr7.4 exon 40857756 40858196 40857756 ID=MS.gene055213.t1.exon1;Parent=MS.gene055213.t1
chr7.4 CDS 40857756 40858196 40857756 ID=cds.MS.gene055213.t1;Parent=MS.gene055213.t1
Gene Sequence

>MS.gene055213

ATGGAATACACCCAAAACCCTAATAAATCTGACCAAATAAGATGGAGCTCTGACGACCCAGGTCAAGTTAGGTCTTATTCTTGTACTTTTTGCAAGAGAGGATTCTCTAATGCACAAGCATTAGGAGGCCACATGAATATCCATAGAAGAGATAGAGCCAAGCTCAAACAACAATCTTCCGAAGAAAATTTGCTTTCTTTGGACATCGCAAACAAAAACCTTAATGATCAAGCAGATTCGGAAGAGAATCATGAAACTCAAAGGGGTAAGTTAATTACTACAAAAGAACTTTCTCATAGTTCTTCATTTGTTGACATAAGGGGATCCAGTGGTGTTATGGCTCAAAGGATTGAAGAGAAGAAATGTGATTTAGACCTTGAGCTTAGGTTAGGTTATCAGCCAATGGATTCATCAACATTGAGCACTCGATCATTTTTCTGA
Protein sequence

>MS.gene055213.t1

MEYTQNPNKSDQIRWSSDDPGQVRSYSCTFCKRGFSNAQALGGHMNIHRRDRAKLKQQSSEENLLSLDIANKNLNDQADSEENHETQRGKLITTKELSHSSSFVDIRGSSGVMAQRIEEKKCDLDLELRLGYQPMDSSTLSTRSFF