Sequence
atgc intronic sequence ATGC exonic sequence...cattatgtatttagtgtgtccatatgttttcataaatgtttgtttagcattgttttttgattcctttgggtcgattcactctactgagcattgcttgcagGGGATCTTGGGCAGAGTTATGATTCAAATATGACACTTACGCACTATGAATTGAACCCTGCAAAGGGAAAAACCGTGTTGTTTGTTGGAGACCTTTCATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g00230.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA09G36360.1 (Glycine max), 3'ss of exon 3
--------cattatgtatttagtgtgtccatatgttttcataaatgtttgtttagcattgttttt-tgattcctttgggtcgattcactctactgagcattgcttgcagGGGATCTTGGGCAGAGTTATGATTCAAATATGACACTTACGCACTATGAATTGAACCCTGCAAAGGGAAAAACCGTGTTGTTTGTTGGAGACCTTTCATA
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tttatcaccatgaacagttgaacatgcacacataatgctatatgcatatgcccaaataggccaatatgtttgctgtaaactggtttg---------gcattatttgcagGGGATCTTGGTCAGAGTTTTGATTCAAATAAGACTCTTTCTCACTATGAATTGAACCCAAGAAAAGGACAAACTGTACTGTTTGTTGGAGACCTCTCTTA
upper sequence: Vv03s0038g00230.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G01000.1 (Glycine max), 3'ss of exon 3
--------------------------------------------------------------------------------------cattatgtatttagtgtgtccatatgttttcataaatgtttgtttagcattg---ttttttgattcctttgggtcgattcactctactgagcattgcttgcagGGGATCTTGGGCAGAGTTATGATTCAAATATGACACTTACGCACTATGAATTGAACCCTGCAAAGGGAAAAACCGTGTTGTTTGTTGGAGACCTTTCATA
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gtaagtgtactattctatcaaagtaattcggagtcactgagggggtctagctcaattgtctttatcaccttgaattgttgagcattcatcattaatttgggaaggaaaaatgctat-----atgtttgtgtaccaataggccattatgtttcctgtaaactggtttgtctt---------tatttgcagGGGATCTTGGTCAGAGTTTTGATTCAAATAAAACTCTTTCTCACTATGAATTGAACCCAAGAAAAGGACAAACTGTACTATTCGTTGGAGACCTCTCTTA
upper sequence: Vv03s0038g00230.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT2G16430.2 (Arabidopsis thaliana), 3'ss of exon 3
-------cattatgtat-ttagtgtgtccatatgttttcataaatgtttgtttagcattgttttttgattcctttgggtcgat-tcactctactgagcattgctt-gcagGGGATCTTGGGCAGAGTTATGATTCAAATATGACACTTACGCACTATGAATTGAACCCTGCAAAGGGAAAAACCGTGTTGTTTGTTGGAGACCTTTCATA
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gtactgtcctgaaacatattgtcatggttttaacttttaacaaaaatgcattttac-tagcctctc----ccatggacttgatcttgtgttgcaaatttttgttttgcagGGGATCTTGGGCAGAGTTATGACTCAAACATAACCTTAACACATTATGAGAATAACCCAACAAAAGGGCAAGCGGTTTTGTTCGTCGGCGATATCTCATAMapped 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|161719236|gb|FC069375.1|FC069375EST: AACTCCTCCTAAAGTTGGCCCAGATGTTCCATACACTTTTGGTCTTATAG GGGATCTTGGGCAGAGTTATGATTCAAATATGACACTTACGCACTATGAAT
genomic: AACTCCTCCTAAAGTTGGCCCAGATGTTCCATACACTTTTGGTCTTATAGgtaaccgttc ... ttgcttgcagGGGATCTTGGGCAGAGTTATGATTCAAATATGACACTTACGCACTATGAAT
EST:
gi|71857047|gb|DT006102.1|DT006102EST: AACTCCTCCTAAAGTTGGCCCAGATGTTCCATACACTTTTGGTCTTATAG GGGATCTTGGGCAGAGTTATGATTCAAATATGACACTTA
genomic: AACTCCTCCTAAAGTTGGCCCAGATGTTCCATACACTTTTGGTCTTATAGgtaaccgttc ... ttgcttgcagGGGATCTTGGGCAGAGTTATGATTCAAATATGACACTTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agcattgttttttgattcctttgggtcgattcactctactgagcattgcttgcagGGGATCTTGGGCAGAGTTATGATTCAAATATGACACTTACGCACTATGAATTGAACCCTGCAAAGGGAAAAACCGTGTTGTTTGTTGGAGACCTTTCATA
ttttgat putative branch site (score: 4)
ttttttgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cattatgtatttagtgtgtccatatgttttcataaatgtttgtttagcattgttttttgattcctttgggtcgattcactctactgagcattgcttgcagGGGATCTTGGGCAGAGTTATGATTCAAATATGACACTTACGCACTATGAATTGAACCCTGCAAAGGGAAAAACCGTGTTGTTTGTTGGAGACCTTTCATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - -ccatatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctactga