Sequence
atgc intronic sequence ATGC exonic sequence...tcgtattctgttttacatcttgtcttcctttggtctgtcgttttggaattcatgcatcactcgccttatgcagaatgttaacgtgtttttccacttacagGGCCCTGCATCTAATCCGGAAGCAAACTGCGGTTACTTCAAATGGGCTTCTTCAAAGTCTAGGAATAAATAATGGGAGAGAATGACATTTTAATCAAAGA
Basic information
species | Glycine max |
transcript | GLYMA02G05430.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G05430.1 (Glycine max), 3'ss of exon 11
lower sequence: AT4G36050.1 (Arabidopsis thaliana), 3'ss of exon 8
tcgtattctgttttacatcttgtcttcctttggtctgtcgttttggaattcatgcatcactcgcc-ttatg-cagaatgttaacgtgtttttcca---cttacagGGCCCTGCATCTAATCCGGAAGCAAACTGCGGTTACTTCAAATGGGCTTCTTCAAAGTCTAGGAATAAATAATGGGAGAGAATGACATTTTAATCAAAGA--
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--------------------------------gtaaaaagattttaa--ccaagtctttttaaccgttgtaactacatgctaa-gtatatctacaactcttgcagGGACCTTCCTCTAATCCAGAAGCAAACTGTGGTTATTTCAAATGGGCTTCATCAAAATTCAGAGACAAGTAA-AAGAGTGA-TGAGATCAAAATGATAAGTA
upper sequence: GLYMA02G05430.1 (Glycine max), 3'ss of exon 11
lower sequence: AT4G36050.2 (Arabidopsis thaliana), 3'ss of exon 9
tcgtattctgttttacatcttgtcttcctttggtctgtcgttttggaattcatgcatcactcgcc-ttatg-cagaatgttaacgtgtttttcca---cttacagGGCCCTGCATCTAATCCGGAAGCAAACTGCGGTTACTTCAAATGGGCTTCTTCAAAGTCTAGGAATAAATAATGGGA----GAGAATGACATTTTAATCAAAGA---------------
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--------------------------------gtaaaaagattttaa--ccaagtctttttaaccgttgtaactacatgctaa-gtatatctacaactcttgcagggaccttcctctaatccagAAGCAAACTGTGGTTATTTCAAATGGGCTTCATCAAAATTCAGAGACAAGTAAAAGAGTGATGAGATCAAAATGATAAGTATTGAGGAACGAAGGATTTTMapped 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|15203112|gb|BI425880.1|BI425880EST: CGCAGATTCTATGTTTGTGCCCGTGCTGAG GGCCCTGCATCTAATCCGGAAGCAAACTGCGGTTACTTCAAATGGGCTTCT
genomic: CGCAGATTCTATGTTTGTGCCCGTGCTGAGgtaatctgtt ... ccacttacagGGCCCTGCATCTAATCCGGAAGCAAACTGCGGTTACTTCAAATGGGCTTCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaattcatgcatcactcgccttatgcagaatgttaacgtgtttttccacttacagGGCCCTGCATCTAATCCGGAAGCAAACTGCGGTTACTTCAAATGGGCTTCTTCAAAGTCTAGGAATAAATAATGGGAGAGAATGACATTTTAATCAAAGA
tgttaac putative branch site (score: 2)
tttttccactt putative PPT
aatgttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcgtattctgttttacatcttgtcttcctttggtctgtcgttttggaattcatgcatcactcgccttatgcagaatgttaacgtgtttttccacttacagGGCCCTGCATCTAATCCGGAAGCAAACTGCGGTTACTTCAAATGGGCTTCTTCAAAGTCTAGGAATAAATAATGGGAGAGAATGACATTTTAATCAAAGA
- - -ttctgtt
- - - - - - - - - - - - -tcctttg
- - - - - - - - - - - - - - - - - - - - - - - - -tcatgca