Sequence
atgc intronic sequence ATGC exonic sequence...gctcttcaagtgacaattagtttgaaggtgtagtattgtttcttatcttaaactgctcatgtaggaggcatatatttgatgcttgattgtcttcattcagGATCAAATGCTCCCAAACAGATGGGAATGGAAGTCCTGCAAAGAGGACAGTGCTTCATGATCTTTATGAGAAAGAAGGGCAGAGTCCATGGTATGATAAT
Basic information
species | Glycine max |
transcript | GLYMA08G47790.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G47790.3 (Glycine max), 3'ss of exon 1
lower sequence: AT5G13420.1 (Arabidopsis thaliana), 3'ss of exon 1
--------------------------------------------------------------------------------------------------gctcttcaagtgacaattagtttgaaggtgtagtattgtttcttatcttaaactgctcatgtaggaggcatatatttgatgcttgattgtcttcatt-cagGATCAAATGCTCCCAAACAGATGGGAATGGAAGTCCTGCAAAGAGGACAGTGCTTCATGATCTTTATGAGAAAGAAGGGCAGAGTCCATGGTATGATAAT
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gtaagtctttatatccatttgatgcatgtcttttgtctctgtttctcgctcttggggttcaccaaaaattgaatctttttagctggaaacgtaccacgaatctcaaagtaacatttt-ttataagatggattaggaaaagcaactgtatttcccctttttggttggtaaaagtctgattttt--ttgtttaatttgcagTGTGAGGTGTTCAGTGTCTGGTGGAAATGGAACTGCTGGAAAGAGAACGACTCTTCATGATCTATATGAGAAGGAAGGTCAGAGTCCTTGGTATGATAAT
upper sequence: GLYMA08G47790.3 (Glycine max), 3'ss of exon 1
lower sequence: Vv01s0150g00190.t01 (Vitis vinifera), 3'ss of exon 1
--gctcttcaagtgacaattagtttgaaggtgtagtattgtttcttatcttaaactgctcatgtaggaggcatatatttgatgcttgattgtcttcatt-cagGATCAAATGCTCCCAAACAGATGGGAATGGAAGTCCTGCAAAGAGGACAGTGCTTCATGATCTTTATGAGAAAGAAGGGCAGAGTCCATGGTATGATAAT
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ttgttgtttcatttttctctaattctaaagtttaatttt---taaaggctttctctgattgtaaagtttgagaagttctcattccgtatgttatttattacagTGTCAGATGTTCCCAACTTGAGGGAAATGGAAGCCAAATAAAGAGAACAACTCTTCATGATCTCTATGAGCAGGGAGGGCAGAGCCCATGGTATGATAACMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|9259167|gb|BE347314.1|BE347314EST: GTGTTTGGTAGGATGCGACCCGAGTATAGGAAAGTTGGTAGCTGCTACAA GATCAAATGCTCCCAAACAGATGGGAATGGAAGTCCTGCAAAGAGGACAGT
genomic: GTGTTTGGTAGGATGCGACCCGAGTATAGGAAAGTTGGTAGCTGCTACAAgttgagtttt ... cttcattcagGATCAAATGCTCCCAAACAGATGGGAATGGAAGTCCTGCAAAGAGGACAGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttaaactgctcatgtaggaggcatatatttgatgcttgattgtcttcattcagGATCAAATGCTCCCAAACAGATGGGAATGGAAGTCCTGCAAAGAGGACAGTGCTTCATGATCTTTATGAGAAAGAAGGGCAGAGTCCATGGTATGATAAT
gcttgat putative branch site (score: 5)
tcttcattc putative PPT
atatatttgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gctcttcaagtgacaattagtttgaaggtgtagtattgtttcttatcttaaactgctcatgtaggaggcatatatttgatgcttgattgtcttcattcagGATCAAATGCTCCCAAACAGATGGGAATGGAAGTCCTGCAAAGAGGACAGTGCTTCATGATCTTTATGAGAAAGAAGGGCAGAGTCCATGGTATGATAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG