Sequence
atgc intronic sequence ATGC exonic sequenceGCCTGAGCTTGGTTTTGCTCCGGAGGATTCTGATAGATTGGTCGCGTCTTTCAGTGGAGGGTGGCAGATGAGGATGTGTCTCGGCAAGATTCTACTTCAGgtatgtcaatgcatgtttgaaatatcagccaatgtgattttaagtaaatgttcacatgtttgttttcccgttgaggaattaattcgagttcagaattgat...
Basic information
species | Glycine max |
transcript | GLYMA06G15200.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G15200.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os11g39020.1 (Oryza sativa), 5'ss of exon 1
GCCTGAGCTTGGTTTTGCTCCGGAGGATTCTGATAGATTGGTCGCGTCTTTCAGTGGAGGGTGGCAGATGAGGATGTGTCTCGGCAAGATTCTACTTCAGgta----tgtcaatgcatgtttgaa--------atatcagccaat----gtgattttaag-taaatgttcacatgtttgttttc----ccgttgaggaattaattcgagttcagaattgat---------------------------------------------------------------
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GCCCGAGCTCGGGTTCGCTCCCGAGGACGCCGACCGCCTCGTCGCCTCCTTCAGTGGTGGGTGGCAGATGAGGATGTCCCTCGGCAAGATTCTTCTTCAGgtacagataaaaaagaaaatttgagctctacatgtagcaatcaatggttgtcatattgtgatggagagaaaaatgagtggtattatggccaattggtgatgaatttgg--tctggattgttgaatttgaattgtagtttttagtgtctgtgtgcatttccaatgctgaaattgattgtgtgcag
upper sequence: GLYMA06G15200.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv07s0031g01640.t01 (Vitis vinifera), 5'ss of exon 1
GCCTGAGCTTGGTTTTGCTCCGGAGGATTCTGATAGATTGGTCGCGTCTTTCAGTGGAGGGTGGCAGATGAGGATGTGTCTCGGCAAGATTCTACTTCAGgtatgtcaatgcatgtttgaaatatcagccaatgtgattttaagtaaatgttcacatgtttgttttcccgttgaggaattaattcgagt-tcagaattgat------
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GCCAGAGCTTGGGTTTGCCCCCGAAGATTCAGATAGGTTGGTTGCCTCATTTAGTAGTGGGTGGCAGATGAGAATGTCCCTAGGGAAGATTTTACTTCAGgtataac----catgttttaatttataaatttggtgtgtaaacttgaatg---ataattttgatttaggttgtaagaatgcatccgagtatcttgctttttaggcaaMapped 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|120530014|gb|EH258148.1|EH258148EST: TCAGTGGAGGGTGGCAGATGAGGATGTGTCTCGGCAAGATTCTACTTCAG GAGCCCGATTTGTTGCTGTTAGATGAGCCTACAAATCACCTTGATCTTGAC
genomic: TCAGTGGAGGGTGGCAGATGAGGATGTGTCTCGGCAAGATTCTACTTCAGgtatgtcaat ... ttgtttgcagGAGCCCGATTTGTTGCTGTTAGATGAGCCTACAAATCACCTTGATCTTGAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCCTGAGCTTGGTTTTGCTCCGGAGGATTCTGATAGATTGGTCGCGTCTTTCAGTGGAGGGTGGCAGATGAGGATGTGTCTCGGCAAGATTCTACTTCAGgtatgtcaatgcatgtttgaaatatcagccaatgtgattttaagtaaatgttcacatgtttgttttcccgttgaggaattaattcgagttcagaattgat
- - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA