Sequence
atgc intronic sequence ATGC exonic sequenceGTTGCACTGGTAGTTGGTGGGGGTAACATCTTCCGTGGATCCTCCTGGGCTGGAAGTAGTGGACTAGACCGCTCATCTGCGGATTATATTGGgtgattcccttaatctcttaatttttatcttgaaggttaagtcagggcactgatcgctgatgtgctggttgttaacttagatttccaatttattatgatccacatccactatactttgagttgctcaaaatgcatgagagaagtagtatccaggctttttactaattttgtttaatttatcctctag
Basic information
species | Glycine max |
transcript | GLYMA05G32340.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G32340.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os01g73450.1 (Oryza sativa), 5'ss of exon 4
GTTGCACTGGTAGTTGGTGGGGGTAACATCTTCCGTGGATCCTCCTGGGCTGGAAGTAGTGGACTAGACCGCTCATCTGCGGATTATATTGGgtgattcccttaatctcttaatttttatcttgaaggttaagtcagggcactgatcgctgatgtgctggttgttaacttagatttccaatttattatgatccacatccactatactttgagttgctcaaaatgcatgagagaagtagtatccaggctttttactaattttgtttaatttatcctctag
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GTTGCTATTGTTGTTGGTGGCGGCAATATCTTCCGCGGGGCCTCTTGGGCTGGATGTAGTGGACTCGACCGCTCATCAGCAGATTACATTGGgtatgatgttcagttttctaatgtctttcataa---ttgaaccatcgtaac-atc-ctg------tggttggcaatcgagaatgc--attaa--atgaagtggaagcgccatgag------------------------------------------------------------------------
upper sequence: GLYMA05G32340.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G139462_T06 (Zea mays), 5'ss of exon 4
GTTGCACTGGTAGTTGGTGGGGGTAACATCTTCCGTGGATCCTCCTGGGCTGGAAGTAGTGGACTAGACCGCTCATCTGCGGATTATATTGGgtgattcccttaatctcttaatttttatcttgaaggttaagtcagggcactgatcgctgatgtgctggttgttaacttagatttccaatttattatgatccacatccactatactttgagttgctcaaaatgcatgagagaagtagtatccaggctttttactaattttgtttaatttatcctctag
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GTTGCTATTGTTGTTGGCGGTGGCAATATCTTCCGTGGGGCCTCTTGGGCTGGATGTAGTGGGCTTGACCGCTCATCTGCGGATTACATCGGgtaagatgttcaatgcccttattctatgctcagctgttaagtagatttaaaaaggagttgaatgcaataaagtatgatatagctaagccaaataatgaaa---------------------------------------------------------------------------------------
upper sequence: GLYMA05G32340.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G139462_T04 (Zea mays), 5'ss of exon 3
--------GTTGCACTGGTAGTTGGTGGGGGTAACATCTTCCGTGGATCCTCCTGGGCTGGAAGTAGTGGACTAGACCGCTCATCTGCGGATTATATTGGgtgattcccttaatctcttaatttttatcttgaaggttaagtcagggcactgatcgctgatgtgctggttgttaacttagatttccaatttattatgatccacatccactatactttgagttgctcaaaatgcatgagagaagtagtatccaggctttttactaattttgtttaatttatcctctag
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CCTTGCAGGTTGCTATTGTTGTTGGCGGTGGCAATATCTTCCGTGGGGCCTCTTGGGCTGGATGTAGTGGGCTTGACCGCTCATCTGCGGATTACATCGGgtaagatgttcaatgcccttattctatgctcagctgttaagtagatttaaaaaggagttgaatgcaataaagtatgatatagctaagccaaataatgaaa---------------------------------------------------------------------------------------
upper sequence: GLYMA05G32340.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G149535_T01 (Zea mays), 5'ss of exon 4
GTTGCACTGGTAGTTGGTGGGGGTAACATCTTCCGTGGATCCTCCTGGGCTGGAAGTAGTGGACTAGACCGCTCATCTGCGGATTATATTGGgtgattcccttaatctcttaatttttatcttgaaggttaagtcagggcactgatcgctgatgtgctggttgttaacttagatttccaatttattatgatccacatccactatactttgagttgctcaaaatgcatgagagaagtagtatccaggctttttactaattttgtttaatttatcctctag
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GTTGCTATTGTTGTTGGCGGTGGCAATATCTTTCGTGGGGCCTCTTGGGCTGGATGTAGTGGTCTTGACCGCTCATCTGCAGATTACATCGGgtaagatgttcaatgccttgtatattttcattcc--cttattctatgctc-ggctgttaagttgccttcaaaagaagttgagatgcaataaagtgaaacaaaa------------------------------------------------------------------------------------
upper sequence: GLYMA05G32340.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv04s0044g00890.t01 (Vitis vinifera), 5'ss of exon 5
GTTGCACTGGTAGTTGGTGGGGGTAACATCTTCCGTGGATCCTCCTGGGCTGGAAGTAGTGGACTAGACCGCTCATCTGCGGATTATATTGGgtgattcccttaatctcttaatttttatcttgaaggttaagtcagggcactgatcgctgatgtgctggttgttaacttagatttccaatttattatgatccacatccactatactttgagttgctcaaaatgcatgagagaagtagtatccaggctttttactaattttgtttaatttatcctctag
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GTTGCAATTGTGGTTGGTGGGGGAAATATTTTTCGTGGATCCTCTTGGGCAGGAAGTGGTGGCCTTGATCGTTCTTCTGCTGATTACATTGGgt-attccttttgtttgg-gttttttttaatgcattttatcttattggacagctagttaatttttggaatattg---tggtattccttttatttgggttttattt----------------------------------------------------------------------------------Mapped 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|9902835|gb|BE611803.1|BE611803EST: TCCTGGGCTGGAAGTAGTGGACTAGACCGCTCATCTGCGGATTATATTGG GATGTTGGCCACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAAAG
genomic: TCCTGGGCTGGAAGTAGTGGACTAGACCGCTCATCTGCGGATTATATTGGgtgattccct ... tatcctctagGATGTTGGCCACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTGCACTGGTAGTTGGTGGGGGTAACATCTTCCGTGGATCCTCCTGGGCTGGAAGTAGTGGACTAGACCGCTCATCTGCGGATTATATTGGgtgattcccttaatctcttaatttttatcttgaaggttaagtcagggcactgatcgctgatgtgctggttgttaacttagatttccaatttattatgatccacatccactatactttgagttgctcaaaatgcatgagagaagtagtatccaggctttttactaattttgtttaatttatcctctag
- - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA