Sequence
atgc intronic sequence ATGC exonic sequence...tctttcattatactgttggtgaaacattggagtattgcttcaaaattggaagtttgacatcaaaattgaagatgatttatttgcaaactatatgtatcagGTGTGGCGTATAAGGACTGGTCAATGCTTACGCCGACTTGAACGTGCACATTCCCAAGGTGTTACAAGTCTTGTTTTCTCTCGAGATGGAAGTCAGATAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g08930.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G037683_T01 (Zea mays), 3'ss of exon 8
------tctttcattatactgttggtgaaacattggagtattgcttcaaaattggaagtttgacatcaaaattgaagatgatttatttgcaaactatatgtatcagGTGTGGCGTATAAGGACTGGTCAATGCTTACGCCGACTTGAACGTGCACATTCCCAAGGTGTTACAAGTCTTGTTTTCTCTCGAGATGGAAGTCAGATAC
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ttggtaaactttat-gcattattggtcag-catctgaacataatcatttgatgtaatctttacaattaactcctatgttaatattctcccat----taattcccagGTTTGGCGTATACGAACTGGTCAGTGCTTGCGACGCCTTGAGCGTGCACATTCGAAAGGTGTTACAAGTGTTACATTTTCACGTGATGGAACCCAAATAT
upper sequence: Vv17s0000g08930.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA05G30430.2 (Glycine max), 3'ss of exon 9
---------tctttcattatactgttggtg-aaacattggagtattgcttcaaaattggaagtttgacatcaaaattgaagatgatttatttgcaaactatatgtatcagGTGTGGCGTATAAGGACTGGTCAATGCTTACGCCGACTTGAACGTGCACATTCCCAAGGTGTTACAAGTCTTGTTTTCTCTCGAGATGGAAGTCAGATAC
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atgttgtagttgctgact-tgctgtttttggaaatgtttatgtttt-cacctcaactgttaatatg----taaaacttaaaactgtatattcacatttcattt----tagGTCTGGCGTATTAGGACTGGTCAGTGCTTACGGCGTCTTGAACGTGCTCATTCTCAAGGTGTCACAAGTGTTTCCTTCTCCCGTGATGGAAGCCAGTTAT
upper sequence: Vv17s0000g08930.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA08G13560.2 (Glycine max), 3'ss of exon 9
-------tctttcattatactgttggtg-aaacattggagtattgcttcaaaattggaagtttgacatcaaaattgaagatgatttatttgcaaactatatgtatcagGTGTGGCGTATAAGGACTGGTCAATGCTTACGCCGACTTGAACGTGCACATTCCCAAGGTGTTACAAGTCTTGTTTTCTCTCGAGATGGAAGTCAGATAC
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gttgtagttgctgact-tgctgtttttggaaatgtttatgtttt-cacctcaactgttaatatg---taaaacttaaaaactgtatattt-cacatttcattt--tagGTCTGGCGTATTAGGACTGGTCAGTGCTTGCGGCGTCTTGAACGTGCTCATTCTCAAGGTGTCACAAGTGTTTCCTTCTCTCGTGATGGAAGCCAGTTAT
upper sequence: Vv17s0000g08930.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA02G18000.1 (Glycine max), 3'ss of exon 3
-------tctttcattatactgttggtgaaacattggagtattgcttcaaaattggaagtttgacatcaaaattgaagatgatttatttgcaaactatatgtatcagGTGTGGCGTATAAGGACTGGTCAATGCTTACGCCGACTTGAACGTGCACATTCCCAAGGTGTTACAAGTCTTGTTTTCTCTCGAGATGGAAGTCAGATAC
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gttgtagtttctgact-tgctgtttttggaaatttttatgttttcacctcaactattaatatg---taaaacttaaaaaatgtacaat-gcacacttcattt--tagGTCTGGCGTTTTAGGACTAGTCAATGCTTGTGGCGTCTTGAACGTGCTCATTCTCAAGGTGTCACAAGTGTTTCCTTCTCTCGTGATGGAAGCCAGTTAT
upper sequence: Vv17s0000g08930.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT1G73720.1 (Arabidopsis thaliana), 3'ss of exon 9
--------------------------------------------------------tctttcattatactgttggtgaaacattggagt----attgcttcaaaattggaagtttgac---atcaaaattgaagat---gatttatttgcaaactatatgtatcagGTGTGGCGTATAAGGACTGGTCAATGCTTACGCCGACTTGAACGTGCACATTCCCAAGGTGTTACAAGTCTTGTTTTCTCTCGAGATGGAAGTCAGATAC---
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gtaagttccagctgcatatgtttccttaaagttgaattttttgtctgaagatagactattgcggcagtttggtagatatatcttcttcctctcattggtcccatat--gtattctgattgaatacaaatagaaaaactagacttagatgcatgtcacttttg-cagATCTGGCGTATAAGGACTGGTGTATGCATACGTCGTTTTGA---TGCACATTCCCAAGGAGTTACAAGTCTTTCCTTCTCTCGGGATGGAAGCCAATTACTGAMapped 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|71862424|gb|DT011479.1|DT011479EST: GCAGAGATTCGGAGATGCTTGCATCTGGATCACAAGATGGAAAAATCAAA GTGTGGCGTATAAGGACTGGTCAATGCTTACGCCGACTTGAACGTGCACAT
genomic: GCAGAGATTCGGAGATGCTTGCATCTGGATCACAAGATGGAAAAATCAAAgtattgttaa ... tatgtatcagGTGTGGCGTATAAGGACTGGTCAATGCTTACGCCGACTTGAACGTGCACAT
EST:
gi|30129597|gb|CB914936.1|CB914936EST: GCAGAGATTCGGAGATGCTTGCATCTGGATCACAAGATGGAAAAATCAAA GTGTGGCGTATAAGGACTGGTCAATGCTTACGCCGACTTGAACGTGCACAT
genomic: GCAGAGATTCGGAGATGCTTGCATCTGGATCACAAGATGGAAAAATCAAAgtattgttaa ... tatgtatcagGTGTGGCGTATAAGGACTGGTCAATGCTTACGCCGACTTGAACGTGCACAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttggaagtttgacatcaaaattgaagatgatttatttgcaaactatatgtatcagGTGTGGCGTATAAGGACTGGTCAATGCTTACGCCGACTTGAACGTGCACATTCCCAAGGTGTTACAAGTCTTGTTTTCTCTCGAGATGGAAGTCAGATAC
gtttgac putative branch site (score: 4)
aaaattgaagatgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tctttcattatactgttggtgaaacattggagtattgcttcaaaattggaagtttgacatcaaaattgaagatgatttatttgcaaactatatgtatcagGTGTGGCGTATAAGGACTGGTCAATGCTTACGCCGACTTGAACGTGCACATTCCCAAGGTGTTACAAGTCTTGTTTTCTCTCGAGATGGAAGTCAGATAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - ctgttgg
- - - - - - - - - - gaaacat
- - - - - - - - - - - - - - - - - - - -tcaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caaacta