Sequence
atgc intronic sequence ATGC exonic sequencegtggaaatctgaatctctttttctacttaatttgatcctggggtcattatcattcatgtgaaagtattgcttttggccctcaataatctctatatcacgtgggacttgtatccagAGGGAATGGAGCAAGTGTTGCTCGAATTGTTCCTTATGCAGCACTGCATTATATGGCTTATGAGCAATACCGGCGATGGATCATACTCAATTTCCCTGAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g02470.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os02g13300.2 (Oryza sativa), 3'ss of exon 2
gtggaaatctgaatctctttttctacttaatttgatcctggggtcattatcattcatgtgaaagtattgcttttggccctcaataatctctatatcacgtgggacttgtatccagAGGGAATGGAGCAAGTGTTGCTCGAATTGTTCCTTATGCAGCACTGCATTATATGGCTTATGAGCAATACCGGCGATGGATCATACTCAATTTCCCTGAC
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------------------------------gttggtcttgcctgctttgctacttgcat-aatgaatgacaattg--cactgttgagcttgactt----tggaatcttcccttagGGGAAATGGAGCCAGTGTTGCTCGGATTGTTCCTTATGCAGCTTTGCATTATATGGCCTATGAAGAATACAGACGATGGATCATTCTTGGTTTTCCTAAT
upper sequence: Vv11s0016g02470.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G161299_T01 (Zea mays), 3'ss of exon 2
gtggaaatctgaatctctttttctacttaatttgatcctggggtcattatcattcatgtgaaagtattgcttttggccctcaataatctctatatcacgtgggacttgtatccagAGGGAATGGAGCAAGTGTTGCTCGAATTGTTCCTTATGCAGCACTGCATTATATGGCTTATGAGCAATACCGGCGATGGATCATACTCAATTTCCCTGAC
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--------------gtttgcctcttcctaatttgcgtgacaaatggtagtctatta-ataaatgatgcactcttgagctt----gacttcttaattgt-------ctttctttagGGGAAATGGAGCTAGTGTTGCTCGAATTGTCCCGTATGCAGCTTTGCATTATATGGCCTATGAAGAATACCGCCGGTGGATCATTCTTGGCTTTCCTAAT
upper sequence: Vv11s0016g02470.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA07G15430.1 (Glycine max), 3'ss of exon 2
gtggaaatctgaatctctttttctacttaatttgatcctggggtcattatcattcatgtgaaagtattgcttttggccctcaataatctctatatcacgtgggacttgtatccagAGGGAATGGAGCAAGTGTTGCTCGAATTGTTCCTTATGCAGCACTGCATTATATGGCTTATGAGCAATACCGGCGATGGATCATACTCAATTTCCCTGAC
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---------------gtttttctgacttaagttgaaactgtgatcatgatgaccatcattataa-gttgcaattgaa--ttaaccatctttct-tgatgag----ttg----cagAGGAAATGGAGCAAGTGTTGCAAGGATTATTCCTTACGCAGCTATTCATTATATGTCCTATGAGGAATACCGCAGATGGATTATACAAACTTTTCCTCAT
upper sequence: Vv11s0016g02470.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT4G26180.1 (Arabidopsis thaliana), 3'ss of exon 2
gtggaaatctgaatctctttttctacttaatttgatcctggggtcattatcattcatgtgaaagtattgcttttggccctcaataatctctatatcacgtgggacttgtatccagAGGGAATGGAGCAAGTGTTGCTCGAATTGTTCCTTATGCAGCACTGCATTATATGGCTTATGAGCAATACCGGCGATGGATCATACTCAATTTCCCTGAC
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--------gtacgtttgtctttagtgttagatgcgttttgggatctagttcagtcagatga-----------------ttctgtaactttcgtttt------ggtttgtgaacagAGGGAATGGTGCAAGTGTTGCTCGGATAGTTCCCTATGCAGCTCTTCATTACATGGCTTATGAGGAATACAGGAGATGGATTATCTTTGGTTTCCCAGACMapped 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|161718538|gb|FC069303.1|FC069303EST: GGATCCTTTAGAAAGATTGCAAAAACAGAAGGGGTGCTGGGTTTTTACAG AGGGAATGGAGCAAGTGTTGCTCGAATTGTTCCTTATGCAGCACTGCATTA
genomic: GGATCCTTTAGAAAGATTGCAAAAACAGAAGGGGTGCTGGGTTTTTACAGgtggaaatct ... ttgtatccagAGGGAATGGAGCAAGTGTTGCTCGAATTGTTCCTTATGCAGCACTGCATTA
EST:
gi|161721318|gb|FC070051.1|FC070051EST: GGATCCTTTAGAAAGATTGCAAAAACAGAAGGGGTGCTGGGTTTTTACAG AGGGAATGGAGCAAGTGTTGCTCGAATTGTTCCTTATGCAGCACTGCATTA
genomic: GGATCCTTTAGAAAGATTGCAAAAACAGAAGGGGTGCTGGGTTTTTACAGgtggaaatct ... ttgtatccagAGGGAATGGAGCAAGTGTTGCTCGAATTGTTCCTTATGCAGCACTGCATTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaagtattgcttttggccctcaataatctctatatcacgtgggacttgtatccagAGGGAATGGAGCAAGTGTTGCTCGAATTGTTCCTTATGCAGCACTGCATTATATGGCTTATGAGCAATACCGGCGATGGATCATACTCAATTTCCCTGAC
aataatctctatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtggaaatctgaatctctttttctacttaatttgatcctggggtcattatcattcatgtgaaagtattgcttttggccctcaataatctctatatcacgtgggacttgtatccagAGGGAATGGAGCAAGTGTTGCTCGAATTGTTCCTTATGCAGCACTGCATTATATGGCTTATGAGCAATACCGGCGATGGATCATACTCAATTTCCCTGAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA