Sequence
atgc intronic sequence ATGC exonic sequencegtctgaatgcttaattcaaatttcaacatacattgtttattaatttttatgcattataacattatagtggaaaaactaagctgggtaggagtaattttcttatgaatgcaagtattataataagctgaccagatatattcatgaatagATACCATGTCGAACAGCTATGAGAGGGAGCTTTCCGCTAAATGGCACCTATTTTCAAGTCAACGAG
Basic information
species | Glycine max |
transcript | GLYMA03G34860.1 |
intron # | 18 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G34860.2 (Glycine max), 3'ss of exon 18
lower sequence: Vv08s0007g03920.t01 (Vitis vinifera), 3'ss of exon 15
gtctgaatgcttaattcaaatttcaacatacattgtttattaatttttatgcattataacattatagtggaaaaactaagctgggta-ggagtaattttcttatgaatgcaag-tattataataagctgaccagatatattcatgaatagATACCATGTCGAACAGCTATGAGAGGGAGCTTTCCGCTAAATGGCACCTATTTTCAAGTCAACGAG
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-gtgagatactcactgttactttgagaac-cttttcaacttcactagaggggaaaaaaacaaaaagcaagaaaaacaagaataaaaacaaaaaaacaatggtatcaataccagatactaaccaatatttacaacaccta---atgaccagATACCATGTCGAACAGCAATGAGAGGGAGCTTTCCATTGAATGGCACATACTTCCAAGTTAATGAG
upper sequence: GLYMA03G34860.2 (Glycine max), 3'ss of exon 18
lower sequence: EFJ12207 (Selaginella moellendorffii), 3'ss of exon 11
gtctgaatgcttaattcaaatttcaacatacattgtttattaatttttatgcattataacattatagtggaaaaactaagctgggtaggagtaattttcttatgaat-gcaagtattataataagctgaccagatatattcatgaatagATACCATGTCGAACAGCTATGAGAGGGAGCTTTCCGCTAAATGGCACCTATTTTCAAGTCAACGAG
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----------------------------------------------------------------------------------------------gtgtgtgaggacttggtgatgatttgctaatcgatttattcgtattattgtctagATTCCATGTCGAACGGCAATGCGTGGAAGTTTTCCTTTAAATGGCACCTATTTCCAAGTGAACGAG
upper sequence: GLYMA03G34860.2 (Glycine max), 3'ss of exon 18
lower sequence: EFJ08215 (Selaginella moellendorffii), 3'ss of exon 11
gtctgaatgcttaattcaaatttcaacatacattgtttattaatttttatgcattataacattatagtggaaaaactaagctgggtaggagtaattttcttatgaatgcaagtattataataagctgaccagatatattcatgaatagATACCATGTCGAACAGCTATGAGAGGGAGCTTTCCGCTAAATGGCACCTATTTTCAAGTCAACGAG
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----------------------------------------------------------------------------------gtgtgtgag-ggcttggtgatgatt-------tgctaatggatttatt---tgtattattgtctagATTCCATGTCGAACGGCAATGCGTGGAAGTTTTCCTTTAAATGGCACCTATTTCCAAGTGAACGAGMapped 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|193731627|gb|FK665397.1|FK665397EST: GCAACAGTTTCCGTGAAGCAAGTTCACAGATAGTTCGAGGGACACTCCTG ATACCATGTCGAACAGCTATGAGAGGGAGCTTTCCGCTAAATGGCGCCTAT
genomic: GCAACAGTTTCCGTGAAGCAAGTTCACAGATAGTTCGAGGGACACTCCTGgtctgaatgc ... tcatgaatagATACCATGTCGAACAGCTATGAGAGGGAGCTTTCCGCTAAATGGCACCTAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttcttatgaatgcaagtattataataagctgaccagatatattcatgaatagATACCATGTCGAACAGCTATGAGAGGGAGCTTTCCGCTAAATGGCACCTATTTTCAAGTCAACGAG
agctgac putative branch site (score: 3)
aagtattataataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctgaatgcttaattcaaatttcaacatacattgtttattaatttttatgcattataacattatagtggaaaaactaagctgggtaggagtaattttcttatgaatgcaagtattataataagctgaccagatatattcatgaatagATACCATGTCGAACAGCTATGAGAGGGAGCTTTCCGCTAAATGGCACCTATTTTCAAGTCAACGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT