Sequence
atgc intronic sequence ATGC exonic sequencegtaagcctgtttttgcttttttttattttataaaatttctctgggagattaggaataagatgatactatatttagaggtcttagttaactatattagatgaaaaatggtatattgtttttctttttttgtttatcgtgattattttatgcctcatgtatgacttgttgattatttggtagGTATTTATCTATTGTTAAAGAAGAGGGACTTGAGATATCACAGCCAGCTCTGGATCCTACCAAATCTGAA
Basic information
species | Glycine max |
transcript | GLYMA16G00290.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G00290.1 (Glycine max), 3'ss of exon 5
lower sequence: AT4G18530.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaagcctgtttttgcttttttttattttataaaatttctctgggagattaggaataagatgatactatatttagaggtcttagttaactatattagatgaaaaatggtatattgtttttctttttttgtttatcgtgattattttatgcctcatgtatgacttgttgattatttggtagGTATTTATCTATTGTTAAAGAAGAGGGACTTGAGATATCACAGCCAGCTCTGGATCCTACCAAATCTGAA------------------------------
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-------------------------------------------------------------------------------------------------gtaacacactaaatatagaatttgtgttcttttttatc----ttttttcatttctcattc--caatcgtt--ttactt--tagATATCTATCTATTGTCAAAGAAGAGGGGCTTGAGATATCGCAACCTGCTCTTGACACTTCAAAATCAGAAGTGCATCATCCTATAACCGCTCGTCGAAAA
upper sequence: GLYMA16G00290.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv12s0035g01350.t01 (Vitis vinifera), 3'ss of exon 7
gtaagcctgtttttgcttttttttattttataaaatttctctgggagattaggaataagatgatactatatttagaggtcttagttaactatattagatgaaaaatggtatattgtttttctttttttgtttatcgtgattattttatgcctcatgtatgacttgttgattatttggtagGTATTTATCTATTGTTAAAGAAGAGGGACTTGAGATATCACAGCCAGCTCTGGATCCTACCAAATCTGAA------------------------------
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---------------------------------------------------------------------------atactcaagaaaataaattttcaaaagacagactaagtaatgcagatggtcatgattactcaagtcagtttatattttg-----aacatattaaatcccttgcagATACGTATCTATTGTTGAAGATGAAGGACTTGAAATATCTCAGCCAGCCCTTGATCCTAAGAAGTCACGGGTTCATCATCAAATTACTGCACGTGTGAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgtttatcgtgattattttatgcctcatgtatgacttgttgattatttggtagGTATTTATCTATTGTTAAAGAAGAGGGACTTGAGATATCACAGCCAGCTCTGGATCCTACCAAATCTGAA
tgttgat putative branch site (score: 4)
tgattattttat TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagcctgtttttgcttttttttattttataaaatttctctgggagattaggaataagatgatactatatttagaggtcttagttaactatattagatgaaaaatggtatattgtttttctttttttgtttatcgtgattattttatgcctcatgtatgacttgttgattatttggtagGTATTTATCTATTGTTAAAGAAGAGGGACTTGAGATATCACAGCCAGCTCTGGATCCTACCAAATCTGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC