Sequence
atgc intronic sequence ATGC exonic sequencegtgtgtactttgttgatcattgctgtattaaggagctttttcgttctttcagttgattatcttttcaatacagGGAAGCTCTCAATGCACCTGGATGTGATGCTATCCACATTACAGAAATTGAGACAAGCTTCGAATGTGACACTTTCATCCCTGCTATTGATTCCTTGGTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g04500.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G04480.1 (Glycine max), 3'ss of exon 2
-----------------------------------gtgtgtactttgttgatcattgctgtattaaggagctttttcgttctttcagttgattatc-ttttca-atacagGGAAGCTCTCAATGCACCTGGATGTGATGCTATCCACATTACAGAAATTGAGACAAGCTTCGAATGTGACACTTTCATCCCTGCTATTGATTCCTTGGTA
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gtatatttatatttttgtaaccttccttcttttttctctctgcttctctcctt-ttgtaatcatattaagctctttcactgttgtagctgatgacaattttcatgtacagAGAGGCTCTTAATGCACCTGGATGTGAAGCTGCCCATATTACAGAAATTGAGGCAAGCATTGAGTGTGACACTTTTATGCCTCGAGTTGATACCAATGTA
upper sequence: Vv03s0038g04500.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA04G01240.1 (Glycine max), 3'ss of exon 1
--------------------gtgtgtactttgttgatcattgctgtattaag--gagctttttcgttctttcagttgattatcttttcaatacagGGAAGCTCTCAATGCACCTGGATGTGATGCTATCCACATTACAGAAATTGAGACAAGCTTCGAATGTGACACTTTCATCCCTGCTATTGATTCCTTGGTA
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gtacatctttctttaaaatattttgttcttcatccgctccttccttttcatgttaagctctttctttgttatagctgataattttcatg-tacagAGAGGCTCTCAATGCGCCTGGATGTGAAGCTATCCACTTAACAGAAATTCAGTCAAGTATTGAGTGTGACACTTTTATGCCTCCAGTTGATTTCACTATG
upper sequence: Vv03s0038g04500.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G12280.1 (Glycine max), 3'ss of exon 1
-----------------------------------gtgtgtactttgttgatcattgctgtattaaggagctttttcgttctttcagttgattatc-ttttca-atacagGGAAGCTCTCAATGCACCTGGATGTGATGCTATCCACATTACAGAAATTGAGACAAGCTTCGAATGTGACACTTTCATCCCTGCTATTGATTCCTTGGTA
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gtatatttatattttttgtaaccttcctgctttttctctctgcttctctcctt-ttgtaatcctgttaagctctttctctgttgtagctgatgataattttcatgtacagAGAGGCTCTTAATGCACCTGGATGTGAAGCTGCCCATATTACAGAAATTGAAGCAAGCATTGAGTGTGACACTTTTATGCCTCGAGTTAATACCTCTGTA
upper sequence: Vv03s0038g04500.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA06G01280.1 (Glycine max), 3'ss of exon 2
-----------------gtgtgtactttgttgatcattgctgtat-taaggagctttttcgttctttcagttgattatcttttcaatacagGGAAGCTCTCAATGCACCTGGATGTGATGCTATCCACATTACAGAAATTGAGACAAGCTTCGAATGTGACACTTTCATCCCTGCTATTGATTCCTTGGTA
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gtacatcattctttaaaatattttctcatatgctccttccttttcatgttaagctctttctttgttatagctgataattttcacg-tacagAGAGGCTCTCAATGTGCCTGGATGTGAAGCTATCCACTTAACGGAAATTCAGTCAAGCATTGAGTGTGACACTTTTATGCCTCCAGTTGATTTCACTATAMapped 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|161712791|gb|FC062015.1|FC062015EST: TGTCTGTCCATTGAAAAAGTGTTTGTTATAGGAGGTGGCCAGATACTAAG GGAAGCTCTCAATGCACCTGGATGTGATGCTATCCACATCACAGAAATTGA
genomic: TGTCTGTCCATTGAAAAAGTGTTTGTTATAGGAGGTGGCCAGATACTAAGgtgtgtactt ... ttcaatacagGGAAGCTCTCAATGCACCTGGATGTGATGCTATCCACATTACAGAAATTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgctgtattaaggagctttttcgttctttcagttgattatcttttcaatacagGGAAGCTCTCAATGCACCTGGATGTGATGCTATCCACATTACAGAAATTGAGACAAGCTTCGAATGTGACACTTTCATCCCTGCTATTGATTCCTTGGTA
agttgat putative branch site (score: 5)
ttatcttttc CT-rich tract
attatcttttcaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtgtactttgttgatcattgctgtattaaggagctttttcgttctttcagttgattatcttttcaatacagGGAAGCTCTCAATGCACCTGGATGTGATGCTATCCACATTACAGAAATTGAGACAAGCTTCGAATGTGACACTTTCATCCCTGCTATTGATTCCTTGGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT