Sequence
atgc intronic sequence ATGC exonic sequencegtaagatgatcaaatttttgcgtgtttttttgtctgcctgtgtgtctgtttttatgctgtttccaaatgaagtatatgccctccagcctgatctttacttgattgtaaaacaattttttgaagtcttacatttgattgcatccaaatgcagGTCTCTTGTGGCGAACTTAGCAGCTGCAAATTGCTACAAATCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAG
Basic information
species | Glycine max |
transcript | GLYMA03G33910.3 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G33910.3 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os02g41590.1 (Oryza sativa), 3'ss of exon 6
gtaagatgatcaaatttttgcgtgtttttttgtctgcctgtgtgtctgtttttatgctgtttccaaatgaagtatatgccctccagcctgatctttacttgattgtaaaacaattttttgaagtcttacatttgattgcatccaaatgcagGTCTCTTGTGGCGAACTTAGCAGCTGCAAATTGCTACAAATCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAG
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-----------------------------------------------gatttcaagctgatttcgtactatgtccgttctcaatatttcg-tcagcacctttttctttaacaatatct-gatgtttagctatttatc-tgtctgtac-cagATCACTGGTTGCAAACTTATCAGCAGCAAACTGCTACAAATCTGAGCATCTGAAGAAACCGGAGAACTGGGCACTAG
upper sequence: GLYMA03G33910.3 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G540538_T02 (Zea mays), 3'ss of exon 6
gtaagatgatcaaatttttgcgtgtttttttgtctgcctgtgtgtctgtttttatgctgtttccaaatgaagtatatgccctccagcctgatctttacttgattgtaaaacaattttttgaagtcttacatttgattgcatccaaatgcagGTCTCTTGTGGCGAACTTAGCAGCTGCAAATTGCTACAAATCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAG
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-----------------------------------------gtcagtgaattcacgtt-tttttgcat------catgccatttcacaaaaaattc---tgattgccaacaatttcttctgcaatgatcagttatttccttctgtaaccagGTCATTGATTGCAAATCTGTCAGCGGCAAACTGTTACAAATCTGAGCATCTAAAGAGACCAGAGAACTGGGCACTAG
upper sequence: GLYMA03G33910.3 (Glycine max), 3'ss of exon 3
lower sequence: Vv13s0019g04470.t01 (Vitis vinifera), 3'ss of exon 6
gtaagatgatcaaatttttgcgtgtttttttgtctgcctgtgtgtctgtttttatgctgtttccaaatgaagtatatgccctccagcctgatctttacttgattgtaaaacaattttttgaagtcttacatttgattgcatccaaatgcagGTCTCTTGTGGCGAACTTAGCAGCTGCAAATTGCTACAAATCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAG
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----------------------------------------------gcttcccgtgtcattgtcaagggtcat-catattttcctgtgattttttcagaacatatgccagcaacctgtccatgtgctctcttctatcattt----atgcagGTCACTCATTGCCAACTTATCGGCTGCAAATTGCTACAAGTCTGAACATTTGAAGAGGCCTGAAAACTGGGCACTAGMapped 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|193359917|gb|FK324239.1|FK324239EST: GAAACTACACCTACTGGAACTTGTGCTGTTTGTATAGTTGGTGATGATAG GTCTCTTGTGGCGAACTTAGCAGCTGCAAATTGCTACAAATCTGATCATTT
genomic: GAAACTACACCTACTGGAACTTGTGCTGTTTGTATAGTTGGTGATGATAGgtaagatgat ... ccaaatgcagGTCTCTTGTGGCGAACTTAGCAGCTGCAAATTGCTACAAATCTGATCATTT
EST:
gi|6482402|gb|AW201663.1|AW201663EST: GGTGATGATAG GTCTCTTGTGGCGAACTTAGCAGCTGCAAATTGCTACAAATCTGATCATTT
genomic: GGTGATGATAGgtaagatgat ... ccaaatgcagGTCTCTTGTGGCGAACTTAGCAGCTGCAAATTGCTACAAATCTGATCATTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttgattgtaaaacaattttttgaagtcttacatttgattgcatccaaatgcagGTCTCTTGTGGCGAACTTAGCAGCTGCAAATTGCTACAAATCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAG
attgtaaaacaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagatgatcaaatttttgcgtgtttttttgtctgcctgtgtgtctgtttttatgctgtttccaaatgaagtatatgccctccagcctgatctttacttgattgtaaaacaattttttgaagtcttacatttgattgcatccaaatgcagGTCTCTTGTGGCGAACTTAGCAGCTGCAAATTGCTACAAATCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA