Sequence
atgc intronic sequence ATGC exonic sequence...tgtctattattgtaatcatgtttcttttagaagctttatatatgttaactataaatttgctcgggtttactttactgaaatctaacaacaatgttattagGTACCGGCACTGCAAAGGTACATGCAAAATCGACGGTCACAACTTCAGCAACACCCAGACTTCCACATTACCTCTTCCACCATTCTTGCATCAACGTTAC
Basic information
species | Glycine max |
transcript | GLYMA15G05080.1 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G05080.1 (Glycine max), 3'ss of exon 13
lower sequence: AT1G60995.1 (Arabidopsis thaliana), 3'ss of exon 14
tgtctattattgtaatcatgtttcttttagaagctttatatatgttaactataaatttgctcgggtttactttactgaaatctaacaacaatgttattagGTACCGGCACTGCAAAGGTACATGCAAAATCGACGGTCACAACTTCAGCAACACCCAGACTTCCACATTACCTCTTCCACCATTCTTGCATCAACGTTAC
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-----------gtacgcgtttgattccaacaactcgaagattggccaaatccagagaagctaagcttcaattca--aagtttttatcacaaaattac-agGTACCAGCTCTTCAGAGGTTCCTTCAAAGCCGACAGTCACACCTTCAGCAACACCCAGACTTTCACATCACTTCCTCAACAATCCTAGCATCAACTCTTC
upper sequence: GLYMA15G05080.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv12s0034g02140.t01 (Vitis vinifera), 3'ss of exon 13
------tgtctattattgtaatcatgtttcttttagaagctttatatatgttaactataaatttgctcgggtttactttactgaaatctaacaacaatgttattagGTACCGGCACTGCAAAGGTACATGCAAAATCGACGGTCACAACTTCAGCAACACCCAGACTTCCACATTACCTCTTCCACCATTCTTGCATCAACGTTAC
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aatatttgtggcacaacctagtctagtttgtgtcagcgttggaatttggtttatgctaaaaattgatc---tctatcatatcccaatgttgcatt--cgtt-tcagGTCCCTGCTCTACAACGGTTTATGCAAAATCGACGTTCGCAACTTCAGCCACACCCAGACTTCCACATTACCTCCTCCACCATCCTTGCCTCGACTCTACMapped 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|13480752|gb|BG510095.1|BG510095EST: CCGCGGCTTTTATGCAACACCTTATCCTGTACTTTTGGAATCGGTTTGAG GTACCGGCACTGCAAAGGTACATGCAAAATCGACGGTCACAACTTCAGCAA
genomic: CCGCGGCTTTTATGCAACACCTTATCCTGTACTTTTGGAATCGGTTTGAGgtgatgagtg ... atgttattagGTACCGGCACTGCAAAGGTACATGCAAAATCGACGGTCACAACTTCAGCAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taactataaatttgctcgggtttactttactgaaatctaacaacaatgttattagGTACCGGCACTGCAAAGGTACATGCAAAATCGACGGTCACAACTTCAGCAACACCCAGACTTCCACATTACCTCTTCCACCATTCTTGCATCAACGTTAC
atctaac putative branch site (score: 2)
aatgttatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtctattattgtaatcatgtttcttttagaagctttatatatgttaactataaatttgctcgggtttactttactgaaatctaacaacaatgttattagGTACCGGCACTGCAAAGGTACATGCAAAATCGACGGTCACAACTTCAGCAACACCCAGACTTCCACATTACCTCTTCCACCATTCTTGCATCAACGTTAC
- - - - - - - -tcatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aacaaca