AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene90190

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene90190.t1 MTR_4g094010 98.131 107 2 0 12 118 3 109 6.98e-68 216
MS.gene90190.t1 MTR_4g094060 76.596 94 20 2 25 118 41 132 1.58e-40 142
MS.gene90190.t1 MTR_4g094050 75.532 94 21 2 25 118 41 132 2.98e-39 139
MS.gene90190.t1 MTR_4g094090 68.539 89 24 2 30 118 6 90 1.62e-31 117
MS.gene90190.t1 MTR_4g093845 63.333 90 29 1 29 118 33 118 3.42e-29 110
MS.gene90190.t1 MTR_4g053980 53.774 106 35 5 1 94 1 104 2.55e-25 92.4
MS.gene90190.t1 MTR_6g066240 58.537 82 31 1 37 118 47 125 1.11e-24 97.8
MS.gene90190.t1 MTR_4g076940 42.373 118 59 3 6 116 35 150 6.80e-23 92.4
MS.gene90190.t1 MTR_4g076970 50.000 92 42 2 26 116 20 108 2.21e-22 91.3
MS.gene90190.t1 MTR_4g076940 42.857 112 55 3 12 116 1 110 6.62e-22 89.7
MS.gene90190.t1 MTR_4g076900 51.250 80 37 2 37 116 9 86 1.79e-19 82.8
MS.gene90190.t1 MTR_2g095390 46.429 84 42 1 34 117 104 184 1.48e-18 80.1
MS.gene90190.t1 MTR_7g091350 45.455 77 37 1 37 113 3 74 1.64e-18 76.3
MS.gene90190.t1 MTR_4g094080 64.286 56 14 1 41 96 4 53 1.21e-14 68.2
MS.gene90190.t1 MTR_1g096580 41.758 91 52 1 20 110 51 140 1.53e-13 65.9
MS.gene90190.t1 MTR_1g108340 43.210 81 42 2 30 108 66 144 4.92e-12 61.6
MS.gene90190.t1 MTR_1g108340 43.210 81 42 2 30 108 66 144 5.53e-12 61.2
MS.gene90190.t1 MTR_1g093990 42.697 89 40 3 33 112 55 141 6.66e-12 61.2
MS.gene90190.t1 MTR_5g030910 50.877 57 27 1 53 109 45 100 6.72e-12 61.2
MS.gene90190.t1 MTR_8g059150 59.259 54 20 1 55 108 62 113 9.05e-12 60.8
MS.gene90190.t1 MTR_1g094660 44.872 78 34 3 37 113 501 570 1.10e-11 60.5
MS.gene90190.t1 MTR_2g079980 63.415 41 15 0 55 95 27 67 1.11e-11 60.5
MS.gene90190.t1 MTR_1g094660 44.872 78 34 3 37 113 501 570 1.61e-11 60.1
MS.gene90190.t1 MTR_8g107450 45.161 62 33 1 54 115 64 124 8.46e-11 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene90190.t1 AT1G17840 56.098 82 33 1 37 118 50 128 2.46e-24 96.7
MS.gene90190.t1 AT1G51500 50.000 84 40 1 33 116 20 101 1.00e-21 89.4
MS.gene90190.t1 AT3G21090 45.872 109 48 4 12 116 1 102 1.55e-21 88.6
MS.gene90190.t1 AT1G51460 47.126 87 44 1 32 118 5 89 1.60e-18 80.1
MS.gene90190.t1 AT2G28070 44.048 84 44 1 34 117 111 191 5.80e-17 75.9
MS.gene90190.t1 AT2G28070 44.048 84 44 1 34 117 111 191 5.80e-17 75.9
MS.gene90190.t1 AT1G71960 55.000 60 24 2 52 110 76 133 2.52e-13 65.5
MS.gene90190.t1 AT2G01320 36.634 101 60 2 11 109 44 142 1.98e-12 62.8
MS.gene90190.t1 AT2G01320 36.634 101 60 2 11 109 44 142 1.98e-12 62.8
MS.gene90190.t1 AT2G01320 37.000 100 59 2 11 108 44 141 2.09e-12 62.8
MS.gene90190.t1 AT2G01320 37.000 100 59 2 11 108 44 141 2.09e-12 62.8
MS.gene90190.t1 AT2G01320 36.634 101 60 2 11 109 44 142 2.11e-12 62.8
MS.gene90190.t1 AT2G01320 36.634 101 60 2 11 109 44 142 2.11e-12 62.8
MS.gene90190.t1 AT2G01320 37.000 100 59 2 11 108 44 141 2.20e-12 62.8
MS.gene90190.t1 AT2G01320 37.000 100 59 2 11 108 44 141 2.28e-12 62.4
MS.gene90190.t1 AT4G15215 41.667 72 37 1 42 108 128 199 3.80e-12 62.0
MS.gene90190.t1 AT4G15215 41.667 72 37 1 42 108 128 199 3.80e-12 62.0
MS.gene90190.t1 AT4G15215 41.667 72 37 1 42 108 128 199 3.80e-12 62.0
MS.gene90190.t1 AT4G15215 41.667 72 37 1 42 108 128 199 3.80e-12 62.0
MS.gene90190.t1 AT4G15215 41.667 72 37 1 42 108 128 199 3.84e-12 62.0
MS.gene90190.t1 AT4G15215 41.667 72 37 1 42 108 128 199 3.84e-12 62.0
MS.gene90190.t1 AT4G15215 41.667 72 37 1 42 108 128 199 3.84e-12 62.0
MS.gene90190.t1 AT4G15215 41.667 72 37 1 42 108 128 199 3.84e-12 62.0
MS.gene90190.t1 AT4G15215 41.667 72 37 1 42 108 128 199 3.84e-12 62.0
MS.gene90190.t1 AT4G15215 41.667 72 37 1 42 108 131 202 4.15e-12 62.0
MS.gene90190.t1 AT4G15215 41.667 72 37 1 42 108 131 202 4.19e-12 62.0
MS.gene90190.t1 AT3G53480 43.939 66 36 1 46 110 175 240 2.25e-11 59.7
MS.gene90190.t1 AT5G13580 34.211 114 55 4 1 108 57 156 3.14e-11 59.3
MS.gene90190.t1 AT4G15233 39.726 73 39 2 42 109 71 143 3.26e-11 59.3
MS.gene90190.t1 AT4G15233 39.726 73 39 2 42 109 71 143 3.26e-11 59.3
MS.gene90190.t1 AT4G15233 39.726 73 39 2 42 109 71 143 3.27e-11 59.3
MS.gene90190.t1 AT4G15233 39.726 73 39 2 42 109 71 143 3.27e-11 59.3
MS.gene90190.t1 AT4G15233 39.726 73 39 2 42 109 133 205 3.27e-11 59.3
MS.gene90190.t1 AT4G15233 39.726 73 39 2 42 109 133 205 3.28e-11 59.3
MS.gene90190.t1 AT4G15233 39.726 73 39 2 42 109 133 205 3.28e-11 59.3
MS.gene90190.t1 AT1G53390 42.857 77 37 2 37 113 507 576 8.80e-11 58.2

Find 29 sgRNAs with CRISPR-Local

Find 72 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTTAACTTGGAAAGATTTA+TGG 0.118017 4.2:+19459157 MS.gene90190:CDS
CTTTCAATCTCTAGGATATT+AGG 0.283672 4.2:-19459075 None:intergenic
TGAAAGCAAATCAATTCTTC+AGG 0.309362 4.2:+19459212 MS.gene90190:CDS
CTTAACTTGGAAAGATTTAT+GGG 0.314150 4.2:+19459158 MS.gene90190:CDS
TTGGCTATAATGGGTCCTTC+TGG 0.326290 4.2:+19459267 MS.gene90190:CDS
AAGAATTGATTTGCTTTCAT+TGG 0.326703 4.2:-19459208 None:intergenic
TGCAAAGCCAGGTCAGCTTT+TGG 0.346322 4.2:+19459248 MS.gene90190:CDS
AGAAGGGAGTTTGCTTAACT+TGG 0.354423 4.2:+19459145 MS.gene90190:CDS
AACAAACAAGCATTGGCTTA+TGG 0.366572 4.2:+19460208 MS.gene90190:CDS
GGTTCAAACACAAGACAATC+AGG 0.375821 4.2:+19460166 MS.gene90190:CDS
ATATGTATTTCAGGGAGATT+AGG 0.390555 4.2:+19460145 MS.gene90190:intron
GTGACTGTTTCTGCTTCAAC+AGG 0.427001 4.2:+19459180 MS.gene90190:CDS
TCAATTCTTCAGGGTCTGAC+TGG 0.475591 4.2:+19459222 MS.gene90190:CDS
ATAATGGGTCCTTCTGGTTG+TGG 0.481002 4.2:+19459273 MS.gene90190:CDS
GATGAATGGAGGAGAAGAGA+AGG 0.482193 4.2:+19459128 MS.gene90190:CDS
ACACTTCTTGATGCTTTAGC+AGG 0.497837 4.2:+19459303 MS.gene90190:CDS
GAAAGCAAATCAATTCTTCA+GGG 0.502763 4.2:+19459213 MS.gene90190:CDS
TATTAGGCACAGATGAAAGA+AGG 0.506902 4.2:-19459059 None:intergenic
CTCTTGCGCTTTCAATCTCT+AGG 0.511830 4.2:-19459083 None:intergenic
ATGAATGGAGGAGAAGAGAA+GGG 0.524895 4.2:+19459129 MS.gene90190:CDS
CAATGGCAACAAACAAGCAT+TGG 0.531389 4.2:+19460201 MS.gene90190:CDS
GATTGAAAGCGCAAGAGAAG+AGG 0.532796 4.2:+19459089 MS.gene90190:CDS
CTGACTGGTTATGCAAAGCC+AGG 0.567099 4.2:+19459237 MS.gene90190:CDS
ATTATAGCCAAAAGCTGACC+TGG 0.570027 4.2:-19459255 None:intergenic
GAAAGCGCAAGAGAAGAGGT+AGG 0.592493 4.2:+19459093 MS.gene90190:CDS
GTTCAAACACAAGACAATCA+GGG 0.607925 4.2:+19460167 MS.gene90190:CDS
ATTAGGCACAGATGAAAGAA+GGG 0.612796 4.2:-19459058 None:intergenic
TTCAAACACAAGACAATCAG+GGG 0.633055 4.2:+19460168 MS.gene90190:CDS
AGCATTGGCTTATGGAACCT+CGG 0.634970 4.2:+19460216 MS.gene90190:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GATATTTATATACAAATTAT+TGG + chr4.2:19459980-19459999 MS.gene90190:intron 10.0%
!!! ATTATTTTTATATGTATTTC+AGG + chr4.2:19460136-19460155 MS.gene90190:intron 10.0%
!!! TTATTTTTATATGTATTTCA+GGG + chr4.2:19460137-19460156 MS.gene90190:intron 10.0%
!! TTATATACAAATTATTGGGT+GGG + chr4.2:19459985-19460004 MS.gene90190:intron 20.0%
!! TTTATATACAAATTATTGGG+TGG + chr4.2:19459984-19460003 MS.gene90190:intron 20.0%
!!! AATTTGGTTTTAAACTAAGA+AGG + chr4.2:19459783-19459802 MS.gene90190:intron 20.0%
!!! ATGAACTTTAAAACATAGTA+AGG - chr4.2:19459541-19459560 None:intergenic 20.0%
!!! ATTTGGTTTTAAACTAAGAA+GGG + chr4.2:19459784-19459803 MS.gene90190:intron 20.0%
!!! ATTTTGTATATTGTTTCTCA+AGG + chr4.2:19459439-19459458 MS.gene90190:intron 20.0%
!!! TGTGTTTTTAATTCTTAAAC+AGG + chr4.2:19459881-19459900 MS.gene90190:intron 20.0%
!!! TTACTATGTTTTAAAGTTCA+TGG + chr4.2:19459540-19459559 MS.gene90190:intron 20.0%
! GAAAAACATGTGTTTATCAA+AGG - chr4.2:19459625-19459644 None:intergenic 25.0%
! GCTACATATTACTAGTAATT+TGG + chr4.2:19459767-19459786 MS.gene90190:intron 25.0%
! TGACAAAATTCAAATCTCTT+CGG + chr4.2:19459703-19459722 MS.gene90190:intron 25.0%
! TGTTGAAATAGTAAGTATGT+TGG - chr4.2:19459403-19459422 None:intergenic 25.0%
!! AAAGTCAAACTTTTACCAAT+GGG - chr4.2:19459672-19459691 None:intergenic 25.0%
!! CTTAACTTGGAAAGATTTAT+GGG + chr4.2:19459158-19459177 MS.gene90190:CDS 25.0%
!! TAAAGTCAAACTTTTACCAA+TGG - chr4.2:19459673-19459692 None:intergenic 25.0%
!!! AAGAATTGATTTGCTTTCAT+TGG - chr4.2:19459211-19459230 None:intergenic 25.0%
!!! GTTTTTAATTCTTAAACAGG+AGG + chr4.2:19459884-19459903 MS.gene90190:intron 25.0%
!!! TGGCTTCTATTTCATTTTTT+TGG + chr4.2:19459567-19459586 MS.gene90190:intron 25.0%
!!! TGTTTTTCTGAAGAATTTGT+CGG + chr4.2:19459637-19459656 MS.gene90190:intron 25.0%
AAAAACCAGTTAAAACCACA+TGG - chr4.2:19459851-19459870 None:intergenic 30.0%
AAGTTAGTTATTTGCATGCA+TGG - chr4.2:19459345-19459364 None:intergenic 30.0%
AGGAAGTTATATATAGCAGT+TGG - chr4.2:19459368-19459387 None:intergenic 30.0%
ATATGTATTTCAGGGAGATT+AGG + chr4.2:19460145-19460164 MS.gene90190:intron 30.0%
GAAAGCAAATCAATTCTTCA+GGG + chr4.2:19459213-19459232 MS.gene90190:CDS 30.0%
TCTTCGGTCGTAAAATAAAT+AGG + chr4.2:19459719-19459738 MS.gene90190:intron 30.0%
TGAAAGCAAATCAATTCTTC+AGG + chr4.2:19459212-19459231 MS.gene90190:CDS 30.0%
! GCTTAACTTGGAAAGATTTA+TGG + chr4.2:19459157-19459176 MS.gene90190:CDS 30.0%
!! CTTTCAATCTCTAGGATATT+AGG - chr4.2:19459078-19459097 None:intergenic 30.0%
!! TAGTAAGTATGTTGGTGATT+TGG - chr4.2:19459395-19459414 None:intergenic 30.0%
!! TATGTTGGTGATTTGGATTT+AGG - chr4.2:19459388-19459407 None:intergenic 30.0%
!!! TGTGGTTTTAACTGGTTTTT+AGG + chr4.2:19459851-19459870 MS.gene90190:intron 30.0%
AAGTCAAAACTACTTCCATG+TGG + chr4.2:19459833-19459852 MS.gene90190:intron 35.0%
ATGAAACAAAGCACAATCTG+TGG + chr4.2:19460018-19460037 MS.gene90190:intron 35.0%
ATTAGGCACAGATGAAAGAA+GGG - chr4.2:19459061-19459080 None:intergenic 35.0%
GCATCAAAAAAGATGAATGG+AGG + chr4.2:19459117-19459136 MS.gene90190:CDS 35.0%
GTTCAAACACAAGACAATCA+GGG + chr4.2:19460167-19460186 MS.gene90190:CDS 35.0%
TATTAGGCACAGATGAAAGA+AGG - chr4.2:19459062-19459081 None:intergenic 35.0%
TTCAAACACAAGACAATCAG+GGG + chr4.2:19460168-19460187 MS.gene90190:CDS 35.0%
! GGAGCATCAAAAAAGATGAA+TGG + chr4.2:19459114-19459133 MS.gene90190:CDS 35.0%
!! AACAAACAAGCATTGGCTTA+TGG + chr4.2:19460208-19460227 MS.gene90190:CDS 35.0%
!!! GTTTTAAAGTTCATGGCTGA+TGG + chr4.2:19459547-19459566 MS.gene90190:intron 35.0%
!!! TACTTCCATGTGGTTTTAAC+TGG + chr4.2:19459843-19459862 MS.gene90190:intron 35.0%
!!! TCAGGGGATATTTTGATCAA+TGG + chr4.2:19460184-19460203 MS.gene90190:CDS 35.0%
ACACTTCTTGATGCTTTAGC+AGG + chr4.2:19459303-19459322 MS.gene90190:CDS 40.0%
ATGAATGGAGGAGAAGAGAA+GGG + chr4.2:19459129-19459148 MS.gene90190:CDS 40.0%
ATTATAGCCAAAAGCTGACC+TGG - chr4.2:19459258-19459277 None:intergenic 40.0%
CAATGGCAACAAACAAGCAT+TGG + chr4.2:19460201-19460220 MS.gene90190:CDS 40.0%
GGTTCAAACACAAGACAATC+AGG + chr4.2:19460166-19460185 MS.gene90190:CDS 40.0%
GGTTCAAAGACTACATGCAT+TGG - chr4.2:19460102-19460121 None:intergenic 40.0%
TGTCGGAGATATTAACCCAT+TGG + chr4.2:19459654-19459673 MS.gene90190:intron 40.0%
! AGAAGGGAGTTTGCTTAACT+TGG + chr4.2:19459145-19459164 MS.gene90190:CDS 40.0%
! GTAGATTTTCCACAACCAGA+AGG - chr4.2:19459285-19459304 None:intergenic 40.0%
!! AGGTCAGCTTTTGGCTATAA+TGG + chr4.2:19459257-19459276 MS.gene90190:CDS 40.0%
!! GGTCAGCTTTTGGCTATAAT+GGG + chr4.2:19459258-19459277 MS.gene90190:CDS 40.0%
CTCTTGCGCTTTCAATCTCT+AGG - chr4.2:19459086-19459105 None:intergenic 45.0%
GATGAATGGAGGAGAAGAGA+AGG + chr4.2:19459128-19459147 MS.gene90190:CDS 45.0%
TCAATTCTTCAGGGTCTGAC+TGG + chr4.2:19459222-19459241 MS.gene90190:CDS 45.0%
! GATTGAAAGCGCAAGAGAAG+AGG + chr4.2:19459089-19459108 MS.gene90190:CDS 45.0%
!! ATAATGGGTCCTTCTGGTTG+TGG + chr4.2:19459273-19459292 MS.gene90190:CDS 45.0%
!! GTGACTGTTTCTGCTTCAAC+AGG + chr4.2:19459180-19459199 MS.gene90190:CDS 45.0%
!! TTGGCTATAATGGGTCCTTC+TGG + chr4.2:19459267-19459286 MS.gene90190:CDS 45.0%
!! ATATTTATATACAAATTATT+GGG + chr4.2:19459981-19460000 MS.gene90190:intron 5.0%
!!! AAATAATATCATATTTTAAT+TGG - chr4.2:19460123-19460142 None:intergenic 5.0%
AAAGCACAATCTGTGGCAGC+GGG + chr4.2:19460025-19460044 MS.gene90190:intron 50.0%
CAAAGCACAATCTGTGGCAG+CGG + chr4.2:19460024-19460043 MS.gene90190:intron 50.0%
! CTGACTGGTTATGCAAAGCC+AGG + chr4.2:19459237-19459256 MS.gene90190:CDS 50.0%
! GAAAGCGCAAGAGAAGAGGT+AGG + chr4.2:19459093-19459112 MS.gene90190:CDS 50.0%
! TGCAAAGCCAGGTCAGCTTT+TGG + chr4.2:19459248-19459267 MS.gene90190:CDS 50.0%
AAGCACAATCTGTGGCAGCG+GGG + chr4.2:19460026-19460045 MS.gene90190:intron 55.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 19459051 19460237 19459051 ID=MS.gene90190
chr4.2 mRNA 19459051 19460237 19459051 ID=MS.gene90190.t1;Parent=MS.gene90190
chr4.2 exon 19459051 19459324 19459051 ID=MS.gene90190.t1.exon1;Parent=MS.gene90190.t1
chr4.2 CDS 19459051 19459324 19459051 ID=cds.MS.gene90190.t1;Parent=MS.gene90190.t1
chr4.2 exon 19460158 19460237 19460158 ID=MS.gene90190.t1.exon2;Parent=MS.gene90190.t1
chr4.2 CDS 19460158 19460237 19460158 ID=cds.MS.gene90190.t1;Parent=MS.gene90190.t1
Gene Sequence

>MS.gene90190

ATGGCTTCCCTTCTTTCATCTGTGCCTAATATCCTAGAGATTGAAAGCGCAAGAGAAGAGGTAGGAGCATCAAAAAAGATGAATGGAGGAGAAGAGAAGGGAGTTTGCTTAACTTGGAAAGATTTATGGGTGACTGTTTCTGCTTCAACAGGAAAAACCAATGAAAGCAAATCAATTCTTCAGGGTCTGACTGGTTATGCAAAGCCAGGTCAGCTTTTGGCTATAATGGGTCCTTCTGGTTGTGGAAAATCTACACTTCTTGATGCTTTAGCAGGTACTACATGATCTTGACCATGCATGCAAATAACTAACTTCCAACTGCTATATATAACTTCCTAAATCCAAATCACCAACATACTTACTATTTCAACAATATGTAACATGTCTAATTTTGTATATTGTTTCTCAAGGTTAACTCATTTAAACGAATTAATATATTTGCTTAATTAATAACTTCAAATGAAAAATACTTCATTTTAAATTAAAACCTTACTATGTTTTAAAGTTCATGGCTGATGGCTTCTATTTCATTTTTTTGGATGATATTTGATTGTCTACATATAATCTTTTTCCTTTGATAAACACATGTTTTTCTGAAGAATTTGTCGGAGATATTAACCCATTGGTAAAAGTTTGACTTTATAATCTTAAATGACAAAATTCAAATCTCTTCGGTCGTAAAATAAATAGGCATTAGTATCGTGTTTATGAAAAAAGCTACATATTACTAGTAATTTGGTTTTAAACTAAGAAGGGAAGTTGATTGTTAAATTAAAAAATCAAAGTCAAAACTACTTCCATGTGGTTTTAACTGGTTTTTAGGATGAAGATGTGTTTTTAATTCTTAAACAGGAGGCGTGTCATCTTGACATACGCGTTATTTCATCTTACTGAAAAATTCTATGTACACACATTAAATAATAAGTTTAGATATTTATATACAAATTATTGGGTGGGAACTCTGAGAATGAAACAAAGCACAATCTGTGGCAGCGGGGTTTTTCTTTTATAATTGTGTTCAATTCTTTAAATTAAAGTTTATTAAGTTCCAATGCATGTAGTCTTTGAACCAATTAAAATATGATATTATTTTTATATGTATTTCAGGGAGATTAGGTTCAAACACAAGACAATCAGGGGATATTTTGATCAATGGCAACAAACAAGCATTGGCTTATGGAACCTCG
Protein sequence

>MS.gene90190.t1

MASLLSSVPNILEIESAREEVGASKKMNGGEEKGVCLTWKDLWVTVSASTGKTNESKSILQGLTGYAKPGQLLAIMGPSGCGKSTLLDALAGRLGSNTRQSGDILINGNKQALAYGTS