Sequence
atgc intronic sequence ATGC exonic sequencegtaaggaatacactcctcttttttctttccctccctttttttttataatactctgttttgaaaatttcaaatttaaaagtctacctatgtgtaataggatgctaattttcttttcttggttttatgaatcgatgcatacagGCTTTCAACTGATGGACAGGATTTCTTCACATCTTATGATGAGGTTTATGATAGTTTTGATTCTATGGGTTTGCAAGAGAATCTTCTCAGAGGCATTTAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g01920.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA15G18760.1 (Glycine max), 3'ss of exon 2
gtaaggaatac-actcctcttttttctttccctccctttttttttataatactctgttttgaaaatttcaaat--ttaaaagtctacctatgtgtaatagg-atgctaattttcttttcttggttttatgaa-tcgatgcatacagGCTTTCAACTGATGGACAGGATTTCTTCACATCTTATGATGAGGTTTATGATAGTTTTGATTCTATGGGTTTGCAAGAGAATCTTCTCAGAGGCATTTAT
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gtaagatcttccacttattttttgttttatttttgtttattgttcttcaaagtagttgtgcagaattttgtttcattaacattttagttaattgtttttcatgtttcagtctaatatgtttgattttgaaaacttgatggctgcagGCTTACATCTGATGGACAGGATTTTTTCACATCTTATGATGAGGTTTATGACAGTTTTGATGCTATGGGCTTGCAAGAGAATCTCCTGAGAGGCATTTAT
upper sequence: Vv11s0016g01920.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G06110.1 (Glycine max), 3'ss of exon 2
gtaaggaatacactcctcttttttctttccctccctttttttttataatactctgttttgaaaat-ttcaaatttaaaagtctacctatgtgtaataggatgctaattttcttttcttggtttt---atgaatcgatg-----------catacagGCTTTCAACTGATGGACAGGATTTCTTCACATCTTATGATGAGGTTTATGATAGTTTTGATTCTATGGGTTTGCAAGAGAATCTTCTCAGAGGCATTTAT
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gtaagattttttatttttattattcggagcaatctggttttattattactgaaattgctgttcgtgttcttgttttgtgttggatatgattgcaacaggatgttattgctatctgttcaattttttaatggccttatatttttttttccctttcagACTTTCATCTGATGGACAGGACTTCTTCACATCCTATGACGAGGTTTATGATAGTTTTGACGCTATGGGTTTGCAGGAGAATCTTCTCAGGGGAATTTAC
upper sequence: Vv11s0016g01920.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA13G16570.1 (Glycine max), 3'ss of exon 2
gtaaggaatacactcctcttttttctttccctccctttttttttataatactctgttttgaaaatttcaaatttaaaagtctacctatgtgtaatagga---tgctaattttcttttcttggtttta-tgaatcgatgcata-----------------cagGCTTTCAACTGATGGACAGGATTTCTTCACATCTTATGATGAGGTTTATGATAGTTTTGATTCTATGGGTTTGCAAGAGAATCTTCTCAGAGGCATTTAT
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gtaagattttttgtttttgtttttatctttcttctgagcaatctggttttattattactgaaacgttcttgttttgtgtcgaatatgattgcaacaggatgatgttaatgttatctgttaaattttaattaatggccttatcttcttttttttccctttcagACTTTCATCTGATGGACAGGACTTCTTCACATCCTATGACGAGGTTTATGATAGTTTTGACGCTATGGGTTTGCAGGAAAATCTTCTCAGGGGAATTTAC
upper sequence: Vv11s0016g01920.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA09G07530.3 (Glycine max), 3'ss of exon 2
gtaaggaatacactcctcttttttctttccctccctt----tttttttataatactctgttttgaaaatttcaaatttaaaagtctacctatgtgtaataggatgctaattttcttttcttggtttt-atgaatcgatgcatacagGCTTTCAACTGATGGACAGGATTTCTTCACATCTTATGATGAGGTTTATGATAGTTTTGATTCTATGGGTTTGCAAGAGAATCTTCTCAGAGGCATTTAT
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gtaagatcttccccttattttttgtttattgttcttcaaagtagttctgtaggattctgcttcattagcatttagtt----actgtgattgtttttcatg---tttcagtctaatttgtttgattttgataacttgatggctgcagGCTTACGTCCGATGGTCAGGATTTCTTCACATCCTACGATGAGGTTTATGACAGTTTTGATGCTATGGGCTTGCAAGAGAATCTCCTGAGAGGCATTTAT
upper sequence: Vv11s0016g01920.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G54270.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaaggaatacactcctcttttttctttccctccctttttttttataatactctgttttgaaaatttcaaatttaaaagtctacctatgtgtaataggatgctaattttcttttcttggttttatgaatcgatgcatacagGCTTTCAACTGATGGACAGGATTTCTTCACATCTTATGATGAGGTTTATGATAGTTTTGATTCTATGGGTTTGCAAGAGAATCTTCTCAGAGGCATTTAT---
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--------------------------------------------------gtaagtcctaagatctttagtttca-----ttactcgtttttgatgagattttttttgtatttgctaatcttattgtttgtttgggtgcag-
upper sequence: Vv11s0016g01920.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G54270.2 (Arabidopsis thaliana), 3'ss of exon 2
gtaaggaatacactcctcttttttctttccctccctttttttttataatactctgttttgaaaatttcaaatttaaaagtctacctatgtgtaataggatgctaattttcttttcttggttttatgaatcgatgcatacagGCTTTCAACTGATGGACAGGATTTCTTCACATCTTATGATGAGGTTTATGATAGTTTTGATTCTATGGGTTTGCAAGAGAATCTTCTCAGAGGCATTTAT
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--------------------------------------------------gtaagtcctaagatctttagtttca-----ttactcgtttttgatgagattttttttgtatttgctaatcttattgtttgtttgggtgcag-
upper sequence: Vv11s0016g01920.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G13920.2 (Arabidopsis thaliana), 3'ss of exon 2
gtaaggaatacactcctcttttttctttccctccctttttttttataatactctgttttgaaaatttcaaatttaaaagtctacctatgtgtaataggatgctaattttcttttcttggttttatgaatcgatgcatacagGCTTTCAACTGATGGACAGGATTTCTTCACATCTTATGATGAGGTTTATGATAGTTTTGATTCTATGGGTTTGCAAGAGAATCTTCTCAGAGGCATTTAT---
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----------------------------------gtgagtctttttact--tctgttttttcattcttgagtgtgt---tctctccgcatgctctagc-tgctaattgtactgtattg-----------------atacagACTT--GAGGGACAAG-ATGAGTTCTTCACATCCTATGATGATGTTCATGAGAGCTTTGATGCCATGGGTCTTCAAGAGAACCTTCTCAGGGGTATTTATGCT
upper sequence: Vv11s0016g01920.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G13920.3 (Arabidopsis thaliana), 3'ss of exon 2
gtaaggaatacactcctcttttttctttccctccctttttttttataatactctgttttgaaaatttcaaatttaaaagtctacctatgtgtaataggatgctaattttcttttcttggttttatgaatcgatgcatacagGCTTTCAACTGATGGACAGGATTTCTTCACATCTTATGATGAGGTTTATGATAGTTTTGATTCTATGGGTTTGCAAGAGAATCTTCTCAGAGGCATTTAT---
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------------------------------------gtctttttac----ttctgttttttcattcttgagtgtgt---tctctccgcatgctctagc-tgctaattgtactgtattg-----------------atacagACTT--GAGGGACAAG-ATGAGTTCTTCACATCCTATGATGATGTTCATGAGAGCTTTGATGCCATGGGTCTTCAAGAGAACCTTCTCAGGGGTATTTATGCT
upper sequence: Vv11s0016g01920.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G13920.4 (Arabidopsis thaliana), 3'ss of exon 2
gtaaggaatacactcctcttttttctttccctccctttttttttataatactctgttttgaaaatttcaaatttaaaagtctacctatgtgtaataggatgctaattttcttttcttggttttatgaatcgatgcatacagGCTTTCAACTGATGGACAGGATTTCTTCACATCTTATGATGAGGTTTATGATAGTTTTGATTCTATGGGTTTGCAAGAGAATCTTCTCAGAGGCATTTAT
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----------------------------------gtgagtctttttact--tctgttttttcattcttgagtgtgt---tctctccgcatgctctagc-tgctaattgtactgtattg-----------------atacagACTT--GAGGGACAAG-ATGAGTTCTTCACATCCTATGATGATGTTCATGAGAGCTTTGATGCCATGGGTCTTCAAGAGAACCTTCTCAGGG--------Mapped 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|37190367|gb|CF609716.1|CF609716EST: CGCAGTTCGATACCCGTAATTATGATGCCAAAATGACTGAGCT GCTTTCAACTGATGGACAGGATTTCTTCACATCTTATGATGAGGTTTATGA
genomic: CGCAGTTCGATACCCGTAATTATGATGCCAAAATGACTGAGCTgtaaggaata ... atgcatacagGCTTTCAACTGATGGACAGGATTTCTTCACATCTTATGATGAGGTTTATGA
EST:
gi|110696050|gb|EE074763.1|EE074763EST: GAAGGATCGCAGTTCGATACCCGTAATTATGATGCCAAAATGACTGAGCT GCTTTCAACTGATGGACAGGATTTCTTCACATCTTATGATGAGGTTTAATG
genomic: GAAGGATCGCAGTTCGATACCCGTAATTATGATGCCAAAATGACTGAGCTgtaaggaata ... atgcatacagGCTTTCAACTGATGGACAGGATTTCTTCACATCTTATGATGAGGTTT-ATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtgtaataggatgctaattttcttttcttggttttatgaatcgatgcatacagGCTTTCAACTGATGGACAGGATTTCTTCACATCTTATGATGAGGTTTATGATAGTTTTGATTCTATGGGTTTGCAAGAGAATCTTCTCAGAGGCATTTAT
tgctaat putative branch site (score: 2)
taattttcttttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaggaatacactcctcttttttctttccctccctttttttttataatactctgttttgaaaatttcaaatttaaaagtctacctatgtgtaataggatgctaattttcttttcttggttttatgaatcgatgcatacagGCTTTCAACTGATGGACAGGATTTCTTCACATCTTATGATGAGGTTTATGATAGTTTTGATTCTATGGGTTTGCAAGAGAATCTTCTCAGAGGCATTTAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA