Sequence
atgc intronic sequence ATGC exonic sequencegtagatatcatgaaattggtcacaacttttctcaatcatgttttatattgtgttgtctctcacaccgatggtattgttcatcagCTGCTACTGATGAAGAGAGGAGGGCAAGTGATATATTCAGGACCTCTGGGCCGAAATTCCCACAAGATCATTGAATACTTTGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g03640.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA07G01860.1 (Glycine max), 3'ss of exon 17
-------gtagatatcatgaaattggtcaca-acttttctcaatcatgttttatattgtgtt-gtctctcacaccgatggtattgttc-atcagCTGCTACTGATGAAGAGAGGAGGGCAAGTGATATATTCAGGACCTCTGGGCCGAAATTCCCACAAGATCATTGAATACTTTGAG
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gtaccaaccaacctacaaaccgtttgttgtgtatttcttttctttgtatctcctatcctctttgatacttaatgaaatgttctttttccggcagCTTTTGTTGATGAAAAGAGGAGGGCAAGTGATCTACTCAGGACCATTAGGCCGAAACTCCCACAAGATTGTAGAATACTTTGAG
upper sequence: Vv09s0002g03640.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA08G21540.2 (Glycine max), 3'ss of exon 18
------------gtagatatcatgaaattggtcacaacttttctcaatcatgttttatattgtgttgtctctcacaccgatggtattgttcatcagCTGCTACTGATGAAGAGAGGAGGGCAAGTGATATATTCAGGACCTCTGGGCCGAAATTCCCACAAGATCATTGAATACTTTGAG
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gtaccaaccaacctacaaaccatttg-ttgtgtatttcttttctttgt-atctcctatcctctttaatgcttaatgaaatattcttttttcgccagCTTTTGTTGATGAAAAGAGGAGGACAAGTGATCTACTCAGGACCATTAGGCCGAAATTCCCACAAGATTACGGAATACTTTGAG
upper sequence: Vv09s0002g03640.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA15G02220.1 (Glycine max), 3'ss of exon 17
gtagatatcatgaaattggtcacaacttttctcaatcatgttttat----attgtgttgtctctcacaccgatggtattgttcatcagCTGCTACTGATGAAGAGAGGAGGGCAAGTGATATATTCAGGACCTCTGGGCCGAAATTCCCACAAGATCATTGAATACTTTGAG
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-------gtaccaactaactcataatttgtgtcatattttctttatctccattgctctttggtagataaatattttcttgtgtaccagTTGTTGTTGATGAAGAGAGGAGGGCAAGTGATCTACTCAGGACCATTAGGAAGGAATTCACACAAGATTATAGAATATTTTGAG
upper sequence: Vv09s0002g03640.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA13G43140.1 (Glycine max), 3'ss of exon 16
gtagatatcatgaaattggtcacaacttttctcaatcatgttttatattgtgttgtctct----cacaccgatgg---------tattgttcatcagCTGCTACTGATGAAGAGAGGAGGGCAAGTGATATATTCAGGACCTCTGGGCCGAAATTCCCACAAGATCATTGAATACTTTGAG
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----gtatcaacaaact---cataatttgtatgtgttatatgtttcttctctttatctccattgctctttggtagataaacatttcttgtgcaccagTTGTTGTTGATGAAGAGAGGAGGACAAGTGATCTACTCAGGACCATTAGGAAGGAATTCACTTAGGATTATAGAATATTTTGAGMapped 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|161721191|gb|FC070409.1|FC070409EST: TCTGCACAATCCATCAGCCAAGCATAGATATCTTCGAAGCCTTCGATGAG CTGCTACTGATGAAGAGAGGAGGGCAAGTGATATATTCAGGACCTCTGGGC
genomic: TCTGCACAATCCATCAGCCAAGCATAGATATCTTCGAAGCCTTCGATGAGgtagatatca ... tgttcatcagCTGCTACTGATGAAGAGAGGAGGGCAAGTGATATATTCAGGACCTCTGGGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctcaatcatgttttatattgtgttgtctctcacaccgatggtattgttcatcagCTGCTACTGATGAAGAGAGGAGGGCAAGTGATATATTCAGGACCTCTGGGCCGAAATTCCCACAAGATCATTGAATACTTTGAG
ctctcac putative branch site (score: 3)
atcatgttttatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagatatcatgaaattggtcacaacttttctcaatcatgttttatattgtgttgtctctcacaccgatggtattgttcatcagCTGCTACTGATGAAGAGAGGAGGGCAAGTGATATATTCAGGACCTCTGGGCCGAAATTCCCACAAGATCATTGAATACTTTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA