Sequence
atgc intronic sequence ATGC exonic sequencegtatgcctttaaaacttcatctgttaaactggctattcttttcttttatagctgctaaacatgattctatgtcatggtattcctaatttgatcatttattccaacccttttcatcaatttttttcccatcagGTTGATGAACGGGCCGTTCTCAAGCACTTTGATTGGCCTGAAGGGAAAGCAGATGCATTAAGAGAAGCAGCCTTTGAATATCAAGACTTGATGAAATTGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g02860.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os12g01449.1 (Oryza sativa), 3'ss of exon 5
gtatgcctttaaaacttcatctgttaaactggctattcttttcttttatagctgctaaacatgattctatgtcatggtattcctaatttgatcatttattccaacccttttcatcaatttttttcccatcagGTTGATGAACGGGCCGTTCTCAAGCACTTTGATTGGCCTGAAGGGAAAGCAGATGCATTAAGAGAAGCAGCCTTTGAATATCAAGACTTGATGAAATTGG
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---------------------------gtaagcttatctatttttttttcaatgcaacacatgacaaaatagt-tagtactgaaaaag-ggtca------------------aataacgtttt-------agGTCGATGAGCGGGCAGTACTAAAGCACTTTGATTGGCCAGAGAGCAAAACTGATGCACTAAGAGAGGCAGCCTTTGAGTATCAAGACCTGCTAAAATTAG
upper sequence: Vv01s0011g02860.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os11g01439.1 (Oryza sativa), 3'ss of exon 5
gtatgcctttaaaacttcatctgttaaactggctattcttttcttttatagctgctaaacatgattctatgtcatggtattcctaatttgatcatttattccaacccttttcatcaatttttttcccatcagGTTGATGAACGGGCCGTTCTCAAGCACTTTGATTGGCCTGAAGGGAAAGCAGATGCATTAAGAGAAGCAGCCTTTGAATATCAAGACTTGATGAAATTGG
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-----------------------gtaagct---tatctattttttttctatatgcaacacatgacaaaatagt-tagtactgaaaaag-ggtca------------------aataacatttt-------agGTCGATGAGCGGGCAGTACTAAAGCACTTTGATTGGCCAGAGAGCAAAACTGATGCACTAAGAGAGGCAGCCTTTGAGTATCAAGACCTGCTAAAATTAG
upper sequence: Vv01s0011g02860.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G396927_T01 (Zea mays), 3'ss of exon 2
gtatgcctttaaaacttcatctgttaaactggctattcttttcttttatagctgctaaacatgat-tctatgtcatggtattcctaatttg-atcatttattccaacccttttcatcaatttttttcccatcagGTTGATGAACGGGCCGTTCTCAAGCACTTTGATTGGCCTGAAGGGAAAGCAGATGCATTAAGAGAAGCAGCCTTTGAATATCAAGACTTGATGAAATTGG
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-------------------------------------------gtaagcagc--ccgaacaggccctccatactacacctttgttacaaagtaccagttattgta----cttatgacacattttcacattttagGTTGATGAGCGAGCAGTGTTAAAGCATTTTGATTGGCCAGAGAGCAAAACAGATGCAATAAGAGAAGCAGCTTTTGAATACCAGGATCTGATAAAGTTAC
upper sequence: Vv01s0011g02860.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G11260.1 (Glycine max), 3'ss of exon 5
gtatgcctttaaaacttcatctgttaaactggctattcttttcttttatagctgctaaacatgattctatgtcatggt--attcctaatttgatcatttattccaacccttttcatcaatttttttcccatc--agGTTGATGAACGGGCCGTTCTCAAGCACTTTGATTGGCCTGAAGGGAAAGCAGATGCATTAAGAGAAGCAGCCTTTGAATATCAAGACTTGATGAAATTGG
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-----------------------------------acctaaagttatttaagtcccaatttttttatgattttatggttcacttttaatctcattagaaatctcattttccatt-tcattttattccttatgcaagGTTGATGAACGAGCCGTCCTCAAACACTTTGACTGGCCTGAAGGGAAAGCAGATGCACTAAGGGAGGCAGCTTTTGAATATCAGGATTTGATGAAATTGG
upper sequence: Vv01s0011g02860.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G22620.1 (Glycine max), 3'ss of exon 5
gtatgcctttaaaacttcatctgttaaactggctattcttttcttttatagctgctaaacatgattctatgtcatggtattcctaatttgatcatttattccaacccttttcatcaatttttttcccatcagGTTGATGAACGGGCCGTTCTCAAGCACTTTGATTGGCCTGAAGGGAAAGCAGATGCATTAAGAGAAGCAGCCTTTGAATATCAAGACTTGATGAAATTGG
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--------------ccacatct---aaacagaaaatataaatctcattttccatatcaata--acttcacatc-cagtaccactg-catacttattcatctca----tttt-----attccttatgca--agGTTGACGAACGAGCCGTCCTCAAGCACTTTGACTGGCCTGAAGGAAAAGCAGATGCACTAAGGGAGGCAGCTTTTGAATATCAGGATTTGATGAAATTGG
upper sequence: Vv01s0011g02860.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA20G32630.1 (Glycine max), 3'ss of exon 4
gtatgcctttaaaacttcatctgttaaactgg-ctattcttttcttttatagctgctaaacatgattctatgtcatggtattcctaatttgatcatttattccaacccttttcatcaatttttttcccatcagGTTGATGAACGGGCCGTTCTCAAGCACTTTGATTGGCCTGAAGGGAAAGCAGATGCATTAAGAGAAGCAGCCTTTGAATATCAAGACTTGATGAAATTGG
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----gctttca----tgcatatgaaaaaaagggctaatttcctcctttgcaact-----------ttacatccaatggcttctgcattttattcatct---------cattttat-----tcctttatataagGTCGATGAACAAGCTGTTCTCAAGCACTTTGATTGGCCTGAAGGGAAAACAGATGCAATGAGGGAGGCGGCTTTTGAATATCTGGATCTGATGAAATTAG
upper sequence: Vv01s0011g02860.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT3G25690.1 (Arabidopsis thaliana), 3'ss of exon 5
gtatgcctttaaaacttcatctgttaaactggctattcttttcttttatagctgctaaacatgattctatgtcatggtattcctaatttgatcatttattccaacccttttcatcaatttttttcccatc----agGTTGATGAACGGGCCGTTCTCAAGCACTTTGATTGGCCTGAAGGGAAAGCAGATGCATTAAGAGAAGCAGCCTTTGAATATCAAGACTTGATGAAATTGG
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-------------------------------gtcattaactcctctt-------ttcaacattactttcta-------accgctatttcggttttttttttaaaactcacggatcaatctctatcgttttgtgtagGTTGATGAAAGGGCAGTTCTTAAACACTTTGACTGGCCAGAAGGTAAAGCTGATGCGCTACGAGAAGCAGCTTTTGAATATCAAGATCTTATGAAACTGGMapped 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|352768423|gb|FQ469599.1|FQ469599EST: GGTTAGATGAAGAGCTTTCCTTTTTG GTTGATGAACGGGCCGTTCTCAAGCACTTTGATTGGCCTGAAGGGAAAGCA
genomic: GGTTAGATGAAGAGCTCTCCTTCTTGgtatgccttt ... ttcccatcagGTTGATGAACGGGCCGTTCTCAAGCACTTTGATTGGCCTGAAGGGAAAGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattcctaatttgatcatttattccaacccttttcatcaatttttttcccatcagGTTGATGAACGGGCCGTTCTCAAGCACTTTGATTGGCCTGAAGGGAAAGCAGATGCATTAAGAGAAGCAGCCTTTGAATATCAAGACTTGATGAAATTGG
cccttttcatcaattt CT-rich tract
taatttgatcatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgcctttaaaacttcatctgttaaactggctattcttttcttttatagctgctaaacatgattctatgtcatggtattcctaatttgatcatttattccaacccttttcatcaatttttttcccatcagGTTGATGAACGGGCCGTTCTCAAGCACTTTGATTGGCCTGAAGGGAAAGCAGATGCATTAAGAGAAGCAGCCTTTGAATATCAAGACTTGATGAAATTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC