Sequence
atgc intronic sequence ATGC exonic sequencegtacatttatcaaccttgattatccttctgtactaaggcttaatcttaattactgtccgttcttgaataaatatgtttatcagGCTAGGAGAGAAGATACTTTATTGAAGCTTGCCCACTTCAGGCGGCACAAGAGGAAAACATTGAAGAAAACACCCGGAAAGGCTATGAGTTACCCTTTTC
Basic information
species | Glycine max |
transcript | GLYMA01G37580.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G37580.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os02g01070.1 (Oryza sativa), 3'ss of exon 6
----gtacatttatca-accttgattatccttctgtactaaggcttaatcttaattactgtccgttcttgaataaatatgttta-----tcagGCTAGGAGAGAAGATACTTTATTGAAGCTTGCCCACTTCAGGCGGCACAAGAGGAAAACATTGAAGAAAACACCCGGAAAGGCTATGAGTTACCCTTTTC
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gtaagaatagatattagataactactatatcatatttctctaatttaattttttgggatgatcaactcagattgatttttttttccttttcagGATAGGAGAGAGGATACTTTTCTGCAACTTGCCCATTTTAGGAGGCATAAAAGGAAAGCACTGAAGAAAACACCTGGAAAAGCTGTTGTAAATAACGTGC
upper sequence: GLYMA01G37580.1 (Glycine max), 3'ss of exon 8
lower sequence: AT3G51050.1 (Arabidopsis thaliana), 3'ss of exon 8
gtacatttatcaaccttgattatccttctgtactaaggcttaatctta--attactgtccgttcttgaataaatatgttt--atcagGCTAGGAGAGAAGATACTTTATTGAAGCTTGCCCACTTCAGGCGGCACAAGAGGAAAACATTGAAGAAAACACCCGGAA---AGGCTATGAGTTACCCTTTTC
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gtaagtcttatgcctcctacta-catgcttcgttagtgtaatatattagaaaaattgtttcaaagtacactgttgtctttgcatcagGACCGACGTGAAGATACATTATTGAAGCTTGCTCATTTCAGGCGACACAAGAGGAAAACATTGAAGAAGCAGGCTGGTAGTAAGTCTACAGCTTATCCGT---
upper sequence: GLYMA01G37580.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv04s0023g02750.t01 (Vitis vinifera), 3'ss of exon 8
-------------gtacatttatcaaccttgattatccttctgtactaag--gcttaatcttaat--tactgtccgttcttga-ataaatatgttta--tcagGCTAGGAGAGAAGATACTTTATTGAAGCTTGCCCACTTCAGGCGGCACAAGAGGAAAACATTGAAGAAAACACCCGGAAAGGCTATGAGTTACCCTTTTC
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gtaagacagaagtataaagtaaaccgaacttattctgtgccttttttaaactattttctctagatgatactggtaattcatgatgtaatcatctttaaatcagGATAGGAGAGAAGATACTTTGCTTAAGTTGGCACACTTCAGGCGGCACAAGAGGAAAACATTGAAGAAGACTCAAGGGAAAAGTACAAATTATCCTTTCCMapped 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|208022825|gb|GD821339.1|GD821339EST: GAGTTATGCCTCACCAATGG GCTAGGAGAGAAGATACTTTATTGAAGCTTGCCCACTTCAGGCGGCACAAG
genomic: GAGTTATGCCTCACCAATGGgtacatttat ... tgtttatcagGCTAGGAGAGAAGATACTTTATTGAAGCTTGCCCACTTCAGGCGGCACAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtactaaggcttaatcttaattactgtccgttcttgaataaatatgtttatcagGCTAGGAGAGAAGATACTTTATTGAAGCTTGCCCACTTCAGGCGGCACAAGAGGAAAACATTGAAGAAAACACCCGGAAAGGCTATGAGTTACCCTTTTC
tcttaat putative branch site (score: 3)
ttcttgaataaatatg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacatttatcaaccttgattatccttctgtactaaggcttaatcttaattactgtccgttcttgaataaatatgtttatcagGCTAGGAGAGAAGATACTTTATTGAAGCTTGCCCACTTCAGGCGGCACAAGAGGAAAACATTGAAGAAAACACCCGGAAAGGCTATGAGTTACCCTTTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA