Variation Detail
| Variation ID | sbi33825514 |
| Type | INDEL |
| Position | Chr01 24490-24493 |
| Ref /Alleles | CCTA/ * or C |
| MAF | *: 0.040 |
| 5' Flank | TTGACTTGCGGTGTAGAATAATATTCTACA |
| 3' Flank | AGGTGTAGAATAGCGCTATATATATATGGT |
Individual Alleles
| Sample Id | Type | Alleles |
|---|---|---|
| 101 | Improved | N|N |
| 103 | Improved | N|N |
| 107 | Improved | CCTA|CCTA |
| 11 | Improved | N|N |
| 110 | Improved | N|N |
| 123 | Landrace | CCTA|CCTA |
| 131 | Improved | N|N |
| 132 | Improved | N|N |
| 135 | Improved | CCTA|CCTA |
| 137 | Improved | CCTA|CCTA |
| 138 | Improved | CCTA|CCTA |
| 14 | Improved | CCTA|CCTA |
| 140 | Improved | CCTA|CCTA |
| 141 | Improved | N|N |
| 144 | Improved | CCTA|CCTA |
| 150 | Improved | N|N |
| 154 | Improved | N|N |
| 159 | Landrace | CCTA|CCTA |
| 16 | Improved | CCTA|CCTA |
| 161 | Landrace | CCTA|CCTA |
| 167 | Improved | CCTA|CCTA |
| 168 | Improved | CCTA|CCTA |
| 170 | Improved | N|N |
| 173 | Improved | CCTA|CCTA |
| 175 | Improved | CCTA|CCTA |
| 176 | Improved | CCTA|CCTA |
| 182 | Landrace | N|N |
| 186 | Improved | CCTA|CCTA |
| 190 | Improved | CCTA|CCTA |
| 192 | Improved | *|* |
| 194 | Improved | N|N |
| 195 | Improved | CCTA|CCTA |
| 197 | Improved | CCTA|CCTA |
| J22 | Landrace | CCTA|CCTA |
| J26 | Landrace | CCTA|CCTA |
| J5 | Landrace | CCTA|CCTA |
| J50 | Landrace | CCTA|CCTA |
| 2001 | Landrace | N|N |
| 2005 | Improved | CCTA|CCTA |
| 2008 | Improved | N|N |
| 2009 | Landrace | N|N |
| 201 | Improved | N|N |
| 2010 | Landrace | N|N |
| 2016 | Improved | N|N |
| 2019 | Improved | CCTA|CCTA |
| 202 | Improved | CCTA|CCTA |
| 2021 | Improved | CCTA|CCTA |
| 2023 | Improved | N|N |
| 2026 | Improved | CCTA|CCTA |
| 2029 | Improved | N|N |
| 2030 | Landrace | N|N |
| 2031 | Landrace | CCTA|CCTA |
| 2036 | Improved | CCTA|CCTA |
| 2037 | Improved | N|N |
| 2038 | Improved | N|N |
| 2039 | Improved | CCTA|CCTA |
| 204 | Improved | CCTA|CCTA |
| 2042 | Improved | CCTA|CCTA |
| 2043 | Improved | N|N |
| 2048 | Improved | N|N |
| 2049 | Improved | N|N |
| 205 | Improved | N|N |
| 2050 | Improved | N|N |
| 2052 | Improved | CCTA|CCTA |
| 2054 | Improved | CCTA|CCTA |
| 2056 | Improved | CCTA|CCTA |
| 2059 | Improved | N|N |
| 206 | Improved | N|N |
| 2064 | Improved | CCTA|CCTA |
| 2065 | Improved | N|N |
| 2067 | Improved | CCTA|CCTA |
| 2068 | Improved | CCTA|CCTA |
| 2069 | Improved | CCTA|CCTA |
| 2071 | Improved | N|N |
| 2074 | Improved | CCTA|CCTA |
| 2075 | Improved | *|* |
| 2076 | Improved | *|* |
| 2080 | Improved | CCTA|CCTA |
| 2081 | Improved | CCTA|CCTA |
| 2082 | Improved | N|N |
| 2086 | Improved | CCTA|CCTA |
| 2088 | Improved | *|* |
| 260 | Wild sorghum | N|N |
| 261 | Improved | CCTA|CCTA |
| 262 | Improved | CCTA|CCTA |
| 263 | Improved | CCTA|CCTA |
| 286 | Improved | CCTA|CCTA |
| 29 | Improved | N|N |
| 3 | Improved | N|N |
| 302546 | S.propinquum | N|N |
| 31 | Improved | N|N |
| 32 | Improved | CCTA|CCTA |
| 34 | Improved | N|N |
| 346 | Landrace | CCTA|CCTA |
| 348 | Wild sorghum | CCTA|CCTA |
| 353 | Wild sorghum | N|N |
| 355 | Wild sorghum | N|N |
| 357 | Wild sorghum | N|N |
| 364 | Wild sorghum | CCTA|CCTA |
| 367 | Landrace | N|N |
| s37 | S.propinquum | N|N |
| s38 | S.propinquum | N|N |
| 370 | Landrace | CCTA|CCTA |
| 377 | Wild sorghum | N|N |
| 392 | Wild sorghum | N|N |
| 394 | Wild sorghum | N|N |
| 40 | Improved | N|N |
| 42 | Improved | N|N |
| 43 | Improved | CCTA|CCTA |
| 45 | Improved | N|N |
| 47 | Improved | CCTA|CCTA |
| 48 | Improved | CCTA|CCTA |
| 51 | Improved | CCTA|CCTA |
| 53 | Improved | N|N |
| 56 | Improved | CCTA|CCTA |
| 61 | Improved | CCTA|CCTA |
| 62 | Improved | CCTA|CCTA |
| 66 | Landrace | N|N |
| 67 | Improved | N|N |
| 68 | Improved | N|N |
| 70 | Improved | CCTA|CCTA |
| 73 | Improved | CCTA|CCTA |
| 75 | Improved | CCTA|CCTA |
| 88 | Improved | N|N |
| 89 | Improved | N|N |
| 91 | Improved | N|N |
| 92 | Improved | N|N |
| 93 | Improved | N|N |
| 94 | Improved | CCTA|CCTA |
| 95 | Improved | N|N |
| 96 | Improved | N|N |
| 97 | Improved | N|N |
| s1 | Improved | CCTA|CCTA |
| s36 | Wild sorghum | CCTA|CCTA |
| s2 | Landrace | CCTA|CCTA |
| s3 | Improved | CCTA|CCTA |
| s32 | Improved | CCTA|CCTA |
| s43 | Weedy | CCTA|CCTA |
| s40 | Landrace | N|N |
| s41 | Weedy | N|N |
| s39 | Landrace | CCTA|CCTA |
| s42 | Landrace | CCTA|CCTA |
| s47 | Improved | CCTA|CCTA |
| s5 | Landrace | CCTA|CCTA |
| GW102 | Landrace | N|N |
| GW103 | Landrace | N|N |
| GW104 | Landrace | N|N |
| GW105 | Landrace | CCTA|CCTA |
| GW16 | Landrace | N|N |
| GW2 | Landrace | CCTA|CCTA |
| GW34 | Landrace | N|N |
| GW37 | Landrace | CCTA|CCTA |
| GW58 | Landrace | N|N |
| GW59 | Landrace | CCTA|CCTA |
| GW9 | Landrace | N|N |
| s4 | Weedy | CCTA|CCTA |
| s6 | Improved | CCTA|CCTA |
| s7 | Landrace | CCTA|CCTA |
| s8 | Landrace | CCTA|CCTA |
| s9 | Landrace | CCTA|CCTA |
| J101 | Landrace | CCTA|CCTA |
| J103 | Improved | CCTA|CCTA |
| J112 | Landrace | N|N |
| J113 | Improved | CCTA|CCTA |
| J129 | Improved | N|N |
| J130 | Improved | CCTA|CCTA |
| J136 | Improved | CCTA|CCTA |
| J152 | Improved | N|N |
| J2 | Landrace | CCTA|CCTA |
| J20 | Landrace | CCTA|CCTA |
| J4 | Landrace | CCTA|CCTA |
| J42 | Landrace | CCTA|CCTA |
| J44 | Landrace | CCTA|CCTA |
| J49 | Landrace | CCTA|CCTA |
| J52 | Landrace | CCTA|CCTA |
| J53 | Landrace | CCTA|CCTA |
| J54 | Landrace | N|N |
| J57 | Landrace | N|N |
| J59 | Landrace | CCTA|CCTA |
| J64 | Landrace | CCTA|CCTA |
| J66 | Landrace | N|N |
| J67 | Landrace | CCTA|CCTA |
| J69 | Landrace | CCTA|CCTA |
| J87 | Landrace | CCTA|CCTA |
| J99 | Landrace | CCTA|CCTA |
| s45 | Landrace | CCTA|CCTA |
| s11 | Improved | CCTA|CCTA |
| s10 | Improved | CCTA|CCTA |
| s46 | Improved | CCTA|CCTA |
| s12 | Improved | CCTA|CCTA |
| s13 | Landrace | CCTA|CCTA |
| MHMD | Landrace | N|N |
| s14 | Improved | CCTA|CCTA |
| s15 | Improved | CCTA|CCTA |
| s34 | Weedy | CCTA|CCTA |
| s33 | Wild sorghum | CCTA|CCTA |
| s21 | Wild sorghum | CCTA|CCTA |
| s16 | Wild sorghum | CCTA|CCTA |
| s44 | Improved | CCTA|CCTA |
| s35 | Landrace | CCTA|CCTA |
| s31 | Wild sorghum | CCTA|CCTA |
| s17 | Improved | CCTA|CCTA |
| s18 | Improved | CCTA|CCTA |
| s20 | Improved | CCTA|CCTA |
| s19 | Improved | *|* |
| s22 | Landrace | CCTA|CCTA |
| s23 | Landrace | CCTA|CCTA |
| s24 | Landrace | CCTA|CCTA |
| s25 | Landrace | CCTA|CCTA |
| s26 | Landrace | CCTA|CCTA |
| s27 | Landrace | CCTA|CCTA |
| s28 | Landrace | CCTA|CCTA |
| s29 | Landrace | CCTA|CCTA |
| s30 | Landrace | CCTA|CCTA |
| SL25 | Wild sorghum | C|C |
| SL105 | Wild sorghum | N|N |
| SL108 | Wild sorghum | N|N |
| SL109 | Wild sorghum | N|N |
| SL12 | Wild sorghum | *|* |
| SL129 | Wild sorghum | N|N |
| SL130 | Wild sorghum | CCTA|CCTA |
| SL135 | Wild sorghum | N|N |
| SL136 | Wild sorghum | N|N |
| SL137 | Wild sorghum | N|N |
| SL138 | Wild sorghum | N|N |
| SL140 | Wild sorghum | N|N |
| SL141 | Wild sorghum | CCTA|CCTA |
| SL19 | Wild sorghum | N|N |
| SL28 | Wild sorghum | N|N |
| SL32 | Wild sorghum | N|N |
| SL35 | Wild sorghum | N|N |
| SL36 | Wild sorghum | N|N |
| SL37 | Wild sorghum | N|N |
| SL39 | Wild sorghum | CCTA|CCTA |
| SL41 | Wild sorghum | CCTA|CCTA |
| SL43 | Wild sorghum | N|N |
| SL47 | Wild sorghum | CCTA|CCTA |
| SL49 | Wild sorghum | CCTA|CCTA |
| SL51 | Wild sorghum | N|N |
| SL53 | Wild sorghum | N|N |
| SL62 | Wild sorghum | CCTA|CCTA |
| SL83 | Wild sorghum | CCTA|CCTA |
| SL97 | Landrace | N|N |
| s48 | Improved | CCTA|CCTA |
| Tu13 | Wild sorghum | N|N |
| Tu14 | Wild sorghum | N|N |
| Tu30 | Wild sorghum | CCTA|CCTA |
| Tu5 | Wild sorghum | *|* |
| WSC5 | Landrace | CCTA|CCTA |
| WSC15 | Landrace | N|N |
| WSC19 | Landrace | N|N |
| WSC30 | Landrace | N|N |
| WSC52 | Landrace | CCTA|CCTA |
| WSC6 | Landrace | CCTA|CCTA |
| WSC61 | Landrace | CCTA|CCTA |
| WSC71 | Improved | CCTA|CCTA |
| WSC72 | Landrace | CCTA|CCTA |
| WSC79 | Landrace | N|N |
| WSC94 | Landrace | CCTA|CCTA |
| WSC99 | Landrace | N|N |
| WSC100 | Landrace | N|N |
| WSC104 | Landrace | N|N |
| WSC105 | Landrace | N|N |
| WSC12 | Landrace | CCTA|CCTA |
| WSC13 | Landrace | CCTA|CCTA |
| WSC16 | Landrace | N|N |
| WSC17 | Landrace | CCTA|CCTA |
| WSC18 | Landrace | CCTA|CCTA |
| WSC20 | Landrace | CCTA|CCTA |
| WSC24 | Landrace | N|N |
| WSC25 | Landrace | N|N |
| WSC29 | Landrace | CCTA|CCTA |
| WSC31 | Landrace | CCTA|CCTA |
| WSC32 | Landrace | N|N |
| WSC34 | Landrace | CCTA|CCTA |
| WSC38 | Landrace | CCTA|CCTA |
| WSC39 | Improved | CCTA|CCTA |
| WSC40 | Landrace | CCTA|CCTA |
| WSC54 | Landrace | CCTA|CCTA |
| WSC56 | Landrace | N|N |
| WSC59 | Landrace | CCTA|CCTA |
| WSC68 | Landrace | CCTA|CCTA |
| WSC70 | Landrace | CCTA|CCTA |
| WSC73 | Landrace | CCTA|CCTA |
| WSC81 | Landrace | N|N |
| WSC85 | Improved | N|N |
| WSC91 | Landrace | CCTA|CCTA |
| WSC93 | Landrace | N|N |
| WSC98 | Landrace | CCTA|CCTA |
Alleles Distribution
Gene Annotation
| Variation ID | Gene | Consequence | Transcript | Type | cDNA | Source/target codon | Protein Name | protein pos | source/target Amino acid |
| sbi33825514 | Sobic.001G000400 | 3_prime UTR variant |MODIFIER | Sobic.001G000400.2 | mRNA | 4270 | Sobic.001G000400.2.p | |||
| sbi33825514 | Sobic.001G000400 | intron variant |MODIFIER | Sobic.001G000400.5 | mRNA | Sobic.001G000400.5.p | ||||
| sbi33825514 | Sobic.001G000300 | upstream gene variant |MODIFIER | Sobic.001G000300.2 | mRNA | Sobic.001G000300.2.p | ||||
| sbi33825514 | Sobic.001G000400 | intron variant |MODIFIER | Sobic.001G000400.4 | mRNA | Sobic.001G000400.4.p | ||||
| sbi33825514 | Sobic.001G000400 | intron variant |MODIFIER | Sobic.001G000400.3 | mRNA | Sobic.001G000400.3.p | ||||
| sbi33825514 | Sobic.001G000400 | 3_prime UTR variant |MODIFIER | Sobic.001G000400.1 | mRNA | 4563 | Sobic.001G000400.1.p | |||
| sbi33825514 | Sobic.001G000400 | intron variant |MODIFIER | Sobic.001G000400.6 | mRNA | Sobic.001G000400.6.p |
Genome Browser