AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene46123

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene46123.t1 MTR_7g063220 91.781 146 4 1 1 146 1 138 3.28e-96 273
MS.gene46123.t1 MTR_4g064873 39.216 153 63 3 24 146 21 173 5.69e-23 89.0
MS.gene46123.t1 MTR_1g075430 77.500 40 9 0 19 58 13 52 7.85e-17 73.6
MS.gene46123.t1 MTR_3g068095 68.000 50 16 0 24 73 55 104 9.45e-16 72.0
MS.gene46123.t1 MTR_2g076060 51.471 68 22 2 3 59 18 85 8.81e-15 68.9
MS.gene46123.t1 MTR_4g021270 66.667 42 14 0 24 65 59 100 1.93e-14 68.9
MS.gene46123.t1 MTR_1g070250 61.364 44 17 0 21 64 35 78 1.01e-13 65.5
MS.gene46123.t1 MTR_5g014400 76.471 34 8 0 24 57 80 113 1.11e-13 66.2
MS.gene46123.t1 MTR_1g044225 65.000 40 14 0 24 63 26 65 1.22e-13 64.7
MS.gene46123.t1 MTR_1g070265 64.286 42 13 1 15 56 28 67 1.54e-13 64.7
MS.gene46123.t1 MTR_5g080660 74.359 39 10 0 24 62 47 85 1.80e-13 65.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene46123.t1 AT3G09290 55.556 72 23 1 1 63 1 72 5.03e-19 79.0
MS.gene46123.t1 AT3G53820 33.557 149 52 4 15 139 13 138 1.87e-16 71.6
MS.gene46123.t1 AT5G06070 80.556 36 7 0 24 59 53 88 6.58e-15 69.3
MS.gene46123.t1 AT2G42410 56.897 58 23 1 20 75 43 100 1.07e-14 68.6
MS.gene46123.t1 AT2G42410 56.897 58 23 1 20 75 43 100 1.07e-14 68.6
MS.gene46123.t1 AT2G42410 56.897 58 23 1 20 75 69 126 1.41e-14 68.6
MS.gene46123.t1 AT2G37740 47.826 69 35 1 24 92 37 104 1.50e-14 69.3
MS.gene46123.t1 AT5G43540 40.367 109 55 5 26 131 35 136 4.94e-14 65.1
MS.gene46123.t1 AT3G23130 74.286 35 9 0 24 58 45 79 1.61e-13 65.1
MS.gene46123.t1 AT4G17810 33.846 130 67 4 24 134 44 173 1.84e-11 59.3
MS.gene46123.t1 AT4G17810 76.667 30 7 0 24 53 44 73 2.46e-11 59.3

Find 33 sgRNAs with CRISPR-Local

Find 38 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGAAGAAAATTTGCTTTCTT+TGG 0.082851 7.2:-40942968 MS.gene46123:CDS
CTTATTTGGTCAGATTTATT+AGG 0.139528 7.2:+40943129 None:intergenic
GGTCAGATTTATTAGGGTTT+TGG 0.161658 7.2:+40943136 None:intergenic
GTTTGGCTCTATCTCTTCTA+TGG 0.274061 7.2:+40943007 None:intergenic
TCCGAATCTGCTTGATCATT+AGG 0.285392 7.2:+40942928 None:intergenic
CGTCAGAGCTCCATCTTATT+TGG 0.314582 7.2:+40943115 None:intergenic
CCGAATCTGCTTGATCATTA+GGG 0.317565 7.2:+40942929 None:intergenic
GGAAGATTGTTGTTTGAGTT+TGG 0.334906 7.2:+40942990 None:intergenic
TTATTTGGTCAGATTTATTA+GGG 0.342818 7.2:+40943130 None:intergenic
TTCTTCATTTGTTGAGATAA+GGG 0.355052 7.2:-40942848 MS.gene46123:CDS
CCCTAATGATCAAGCAGATT+CGG 0.394788 7.2:-40942929 MS.gene46123:CDS
GTTCTTCATTTGTTGAGATA+AGG 0.405759 7.2:-40942849 MS.gene46123:CDS
CTGACGACCCTGGTCAAGTT+AGG 0.410101 7.2:-40943098 MS.gene46123:CDS
TTCTCTAATGCACAAGCATT+AGG 0.444472 7.2:-40943045 MS.gene46123:CDS
TTAGACCTTGAGCTTAGGTT+AGG 0.446249 7.2:-40942778 MS.gene46123:CDS
GTGATTTAGACCTTGAGCTT+AGG 0.467678 7.2:-40942783 MS.gene46123:CDS
AGAGAATCATGAAACTCAAA+GGG 0.481266 7.2:-40942905 MS.gene46123:CDS
ATAAATCTGACCAAATAAGA+TGG 0.504424 7.2:-40943125 MS.gene46123:CDS
TAGGTTAGGTTATCAGCCAA+TGG 0.520042 7.2:-40942764 MS.gene46123:CDS
CTCTTCTATGGATATTCATG+TGG 0.536618 7.2:+40943019 None:intergenic
AAGAGAATCATGAAACTCAA+AGG 0.543574 7.2:-40942906 MS.gene46123:CDS
TCTTCATTTGTTGAGATAAG+GGG 0.554280 7.2:-40942847 MS.gene46123:CDS
GAATAAGACCTAACTTGACC+AGG 0.554388 7.2:+40943090 None:intergenic
CCAGTGGTGTTATGGCTCAA+AGG 0.563984 7.2:-40942822 MS.gene46123:CDS
CTTCATTTGTTGAGATAAGG+GGG 0.585995 7.2:-40942846 MS.gene46123:CDS
CTCAATGTTGATGAATCCAT+TGG 0.590079 7.2:+40942748 None:intergenic
CCTTTGAGCCATAACACCAC+TGG 0.590133 7.2:+40942822 None:intergenic
TCAACAAATGAAGAACTATG+AGG 0.591484 7.2:+40942856 None:intergenic
TCTAATGCACAAGCATTAGG+AGG 0.629486 7.2:-40943042 MS.gene46123:CDS
AGATGGAGCTCTGACGACCC+TGG 0.629671 7.2:-40943108 MS.gene46123:CDS
GATAACCTAACCTAAGCTCA+AGG 0.631813 7.2:+40942773 None:intergenic
AATAAGACCTAACTTGACCA+GGG 0.700729 7.2:+40943091 None:intergenic
GAGAATCATGAAACTCAAAG+GGG 0.747840 7.2:-40942904 MS.gene46123:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTATTTGGTCAGATTTATTA+GGG + chr7.2:40942749-40942768 None:intergenic 20.0%
! ATAAATCTGACCAAATAAGA+TGG - chr7.2:40942751-40942770 MS.gene46123:CDS 25.0%
! CTTATTTGGTCAGATTTATT+AGG + chr7.2:40942750-40942769 None:intergenic 25.0%
!! CAAAGAAAGCAAATTTTCTT+CGG + chr7.2:40942910-40942929 None:intergenic 25.0%
!! TTCTTCATTTGTTGAGATAA+GGG - chr7.2:40943028-40943047 MS.gene46123:CDS 25.0%
AAGAGAATCATGAAACTCAA+AGG - chr7.2:40942970-40942989 MS.gene46123:CDS 30.0%
AGAGAATCATGAAACTCAAA+GGG - chr7.2:40942971-40942990 MS.gene46123:CDS 30.0%
TCAACAAATGAAGAACTATG+AGG + chr7.2:40943023-40943042 None:intergenic 30.0%
! CGAAGAAAATTTGCTTTCTT+TGG - chr7.2:40942908-40942927 MS.gene46123:CDS 30.0%
! GTCAGATTTATTAGGGTTTT+GGG + chr7.2:40942742-40942761 None:intergenic 30.0%
! GTTCTTCATTTGTTGAGATA+AGG - chr7.2:40943027-40943046 MS.gene46123:CDS 30.0%
! TCTTCATTTGTTGAGATAAG+GGG - chr7.2:40943029-40943048 MS.gene46123:CDS 30.0%
AATAAGACCTAACTTGACCA+GGG + chr7.2:40942788-40942807 None:intergenic 35.0%
CTCTTCTATGGATATTCATG+TGG + chr7.2:40942860-40942879 None:intergenic 35.0%
GAGAATCATGAAACTCAAAG+GGG - chr7.2:40942972-40942991 MS.gene46123:CDS 35.0%
TTCTCTAATGCACAAGCATT+AGG - chr7.2:40942831-40942850 MS.gene46123:CDS 35.0%
! CTCAATGTTGATGAATCCAT+TGG + chr7.2:40943131-40943150 None:intergenic 35.0%
! CTTCATTTGTTGAGATAAGG+GGG - chr7.2:40943030-40943049 MS.gene46123:CDS 35.0%
! GGTCAGATTTATTAGGGTTT+TGG + chr7.2:40942743-40942762 None:intergenic 35.0%
!! GGAAGATTGTTGTTTGAGTT+TGG + chr7.2:40942889-40942908 None:intergenic 35.0%
!! TCTTGTACTTTTTGCAAGAG+AGG - chr7.2:40942807-40942826 MS.gene46123:CDS 35.0%
CCCTAATGATCAAGCAGATT+CGG - chr7.2:40942947-40942966 MS.gene46123:CDS 40.0%
CCGAATCTGCTTGATCATTA+GGG + chr7.2:40942950-40942969 None:intergenic 40.0%
GAATAAGACCTAACTTGACC+AGG + chr7.2:40942789-40942808 None:intergenic 40.0%
GATAACCTAACCTAAGCTCA+AGG + chr7.2:40943106-40943125 None:intergenic 40.0%
GTGATTTAGACCTTGAGCTT+AGG - chr7.2:40943093-40943112 MS.gene46123:CDS 40.0%
TAGGTTAGGTTATCAGCCAA+TGG - chr7.2:40943112-40943131 MS.gene46123:CDS 40.0%
TCCGAATCTGCTTGATCATT+AGG + chr7.2:40942951-40942970 None:intergenic 40.0%
TCTAATGCACAAGCATTAGG+AGG - chr7.2:40942834-40942853 MS.gene46123:CDS 40.0%
TTAGACCTTGAGCTTAGGTT+AGG - chr7.2:40943098-40943117 MS.gene46123:CDS 40.0%
!! GTTTGGCTCTATCTCTTCTA+TGG + chr7.2:40942872-40942891 None:intergenic 40.0%
CGTCAGAGCTCCATCTTATT+TGG + chr7.2:40942764-40942783 None:intergenic 45.0%
CCTTTGAGCCATAACACCAC+TGG + chr7.2:40943057-40943076 None:intergenic 50.0%
!! CCAGTGGTGTTATGGCTCAA+AGG - chr7.2:40943054-40943073 MS.gene46123:CDS 50.0%
CTGACGACCCTGGTCAAGTT+AGG - chr7.2:40942778-40942797 MS.gene46123:CDS 55.0%
GTTGAGATAAGGGGGTCCAG+TGG - chr7.2:40943038-40943057 MS.gene46123:CDS 55.0%
! AAGGGGGTCCAGTGGTGTTA+TGG - chr7.2:40943046-40943065 MS.gene46123:CDS 55.0%
! AGATGGAGCTCTGACGACCC+TGG - chr7.2:40942768-40942787 MS.gene46123:CDS 60.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 40942729 40943169 40942729 ID=MS.gene46123
chr7.2 mRNA 40942729 40943169 40942729 ID=MS.gene46123.t1;Parent=MS.gene46123
chr7.2 exon 40942729 40943169 40942729 ID=MS.gene46123.t1.exon1;Parent=MS.gene46123.t1
chr7.2 CDS 40942729 40943169 40942729 ID=cds.MS.gene46123.t1;Parent=MS.gene46123.t1
Gene Sequence

>MS.gene46123

ATGGAATACACCCAAAACCCTAATAAATCTGACCAAATAAGATGGAGCTCTGACGACCCTGGTCAAGTTAGGTCTTATTCTTGTACTTTTTGCAAGAGAGGATTCTCTAATGCACAAGCATTAGGAGGCCACATGAATATCCATAGAAGAGATAGAGCCAAACTCAAACAACAATCTTCCGAAGAAAATTTGCTTTCTTTGGACATCGCAAACAAAAACCCTAATGATCAAGCAGATTCGGAAGAGAATCATGAAACTCAAAGGGGTAAGTTAATTACTACAAAAGAACTTCCTCATAGTTCTTCATTTGTTGAGATAAGGGGGTCCAGTGGTGTTATGGCTCAAAGGATTGAAGAGAAGAAATGTGATTTAGACCTTGAGCTTAGGTTAGGTTATCAGCCAATGGATTCATCAACATTGAGCACTCGATCATTTTTCTGA
Protein sequence

>MS.gene46123.t1

MEYTQNPNKSDQIRWSSDDPGQVRSYSCTFCKRGFSNAQALGGHMNIHRRDRAKLKQQSSEENLLSLDIANKNPNDQADSEENHETQRGKLITTKELPHSSSFVEIRGSSGVMAQRIEEKKCDLDLELRLGYQPMDSSTLSTRSFF