Sequence
atgc intronic sequence ATGC exonic sequencegtaagttcacttttacagatcttcccctgcaaaaatctcaagtcattctgcatttctttctgaaatttgtataatcaaactgcactggattatggttttaattgttttattcctctcaactgaaaagATGGAAGAAAGGATGACATTATGCAACATGGTTGTTGAAGCTGGAGGAAAGAATGGTGTTGTTCCTGCTGATAGTACTACACATAAGTACCTTGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0056g01640.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os02g03260.1 (Oryza sativa), 3'ss of exon 7
gtaagttcacttttacagatcttcccctgcaaaaatctcaagtcattctgcatttctttctgaaatttgtataatcaaactgcactggattatggttttaattgttttattcctctcaactgaaaagATGGAAGAAAGGATGACATTATGCAACATGGTTGTTGAAGCTGGAGGAAAGAATGGTGTTGTTCCTGCTGATAGTACTACACATAAGTACCTTGAG
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----------------------------------------gtatgctccgtgctcataactaga--ttgatcaattattttcatctt--tcatggcttttaacctaatatttccgcaaacttggtagATGGAAGAGCGAATGACACTGTGCAACATGGTTATTGAAGCTGGTGGCAAGAATGGTGTTGTGCCTGCCGATCAAACTACATTTAACTATCTTGAG
upper sequence: Vv08s0056g01640.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G370852_T03 (Zea mays), 3'ss of exon 8
gtaagttcacttttacagatcttcccctgcaaaaatctcaagtcattctgcatttctttctgaaatttgtataatcaaactgcactggattatggttttaattgttttattcctctcaa-ctgaaaagATGGAAGAAAGGATGACATTATGCAACATGGTTGTTGAAGCTGGAGGAAAGAATGGTGTTGTTCCTGCTGATAGTACTACACATAAGTACCTTGAG
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-----------------------------------------------gtgcgttccctgctcaagattatcttaattaattgccacaccacgtaacattgaacttagtccttttcacaaacttgctagATGGAAGAACGTATGACACTATGCAACATGGTTGTTGAAGCTGGTGGAAAGAACGGTGTCGTGCCTGCTGATGAAACTACATTTAAATACCTTGAG
upper sequence: Vv08s0056g01640.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G010044_T02 (Zea mays), 3'ss of exon 7
gtaagttcacttttacagatcttcccctgcaaaaatctcaagtcattctgcatttctttctgaaatttgtataatcaaactgcactggattatggttttaattgttttattcctctca-actgaaaagATGGAAGAAAGGATGACATTATGCAACATGGTTGTTGAAGCTGGAGGAAAGAATGGTGTTGTTCCTGCTGATAGTACTACACATAAGTACCTTGAG
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-----------------------------------------------gtgtgtttctggctcaagattatcttaattaattgccacactgcataaccttgaacttagtccttttcgcatatttgctagATGGAAGAGCGTATGACACTATGCAACATGGTTATTGAAGCTGGTGGAAAGAACGGTGTTGTGCCTGCTGATGAAACTACATTTAAATACCTTGAG
upper sequence: Vv08s0056g01640.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G133988_T01 (Zea mays), 3'ss of exon 2
gtaagttcacttttacagatcttcccctgcaaaaatctcaagtcattctgcatttctttctgaaatttgtataatcaaactgc-actggattatggttttaattgttttattcctctca-actgaaaagATGGAAGAAAGGATGACATTATGCAACATGGTTGTTGAAGCTGGAGGAAAGAATGGTGTTGTTCCTGCTGATAGTACTACACATAAGTACCTTGAG
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-----------------------------------------------gtgtgtttctggctcaagattatcttagttaattgccacacttgcataaccttgaacttagtccttttcgcatatttgctagATGGAAGAGCGTATGACACTATGCAACATGGTTATTGAAGCTGGTGGAAAGAACGGTGTTGTGCCTGCTGATGAAACTACATTTAAATACCTTGAG
upper sequence: Vv08s0056g01640.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA14G40570.1 (Glycine max), 3'ss of exon 8
gtaagttcacttttacagatcttcccctgcaaaaatctcaagtcattctgcatt---tctttctgaaatttgtataatcaaactgcactggattatggttttaattgtttt----attcctctcaactgaaaagATGGAAGAAAGGATGACATTATGCAACATGGTTGTTGAAGCTGGAGGAAAGAATGGTGTTGTTCCTGCTGATAGTACTACACATAAGTACCTTGAG
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-------------------------------gaaaacacaagtaaacgggccctaaatttttcttcaatctcggaactc---tttcttttgattataaataaaattgttttggtaatttgttcctcttggatagATGGAAGAACGGATGACATTGTGCAACATGGTTGTTGAAGCTGGTGGAAAGAATGGTGTTGTTCCTGCTGACAGCACTACATTTAAATATCTTGAG
upper sequence: Vv08s0056g01640.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA17G37540.1 (Glycine max), 3'ss of exon 8
gtaagttcacttttacagatcttcccctgcaaaaatctcaagtcattctgcatttctttctgaaatttgtataatcaaactgcactggattatggttttaattgttttattcctctcaactgaaaagATGGAAGAAAGGATGACATTATGCAACATGGTTGTTGAAGCTGGAGGAAAGAATGGTGTTGTTCCTGCTGATAGTACTACACATAAGTACCTTGAG
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-----------------aaaacacaagtaaacgggccataaatttttcttcaatc---tcagaactctttctttttta-ttataaataaaagttgttttggtaattt-gttcctct----tggataGATGGAAGAACGGATGACATTGTGCAACATGGTTGTTGAAGCTGGTGGAAAGAATGGTGTTGTTCCTGCTGACAGCACTACATTTAAATATCTTGA-
upper sequence: Vv08s0056g01640.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT4G13430.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaagttcacttttacagatcttcccctgcaaaaatctcaagtcattctgcatttctttctgaaatttgtataatcaaactgcactggattatggttttaattgttttattcctctcaactgaaaagATGGAAGAAAGGATGACATTATGCAACATGGTTGTTGAAGCTGGAGGAAAGAATGGTGTTGTTCCTGCTGATAGTACTACACATAAGTACCTTGAG
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gtaagaa-atcattctatatttcctacattatgggtcccttctcttatagaaataaaaattaatagctgcatatgatgttatcattgatttataaat--ggttgcttgaatcttttttggctgctagATGGAAGAAAGAATGACATTGTGCAACATGGTTGTGGAAGCTGGGGGAAAGAATGGTGTCATCCCTCCTGATGCGACGACATTAAATTATGTTGAG
upper sequence: Vv08s0056g01640.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: PP1S227_66V6.1 (Physcomitrella patens), 3'ss of exon 8
gtaagttcacttttacagatcttcccctgcaaaaatctcaagtcattctgcatttctttctgaaatttgtataatcaaactgcactggattatggttttaattgttttattcctctcaactgaaaagATGGAAGAAAGGATGACATTATGCAACATGGTTGTTGAAGCTGGAGGAAAGAATGGTGTTGTTCCTGCTGATAGTACTACACATAAGTACCTTGAG----
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------------------------aatcgttggctttattcgtactttctcgactgcacgaagagtttattttctagaggcttgctgggtctt---tctgactgctgcatttggaaattacatgtagATGGAAGACAGAATGACTCTGTGCAACATGGTCGTGGAAGCTGGAGGCAAGAATGGCGTTGTTCCTGCTGATGCCACAACCGCGAAGTACTTGGAAGGAAMapped 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|110688159|gb|EE066391.1|EE066391EST: CAACATATAAATCCATGGAATTTGTTGGCAGTACTGTTGAAAGTCTGACT ATGGAAGAAAGGATGACATTATGCAACATGGTTGTTGAAGCTGGAGGAAAG
genomic: CAACATATAAATCCATGGAATTTGTTGGCAGTACTGTTGAAAGTCTGACTgtaagttcac ... aactgaaaagATGGAAGAAAGGATGACATTATGCAACATGGTTGTTGAAGCTGGAGGAAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatcaaactgcactggattatggttttaattgttttattcctctcaactgaaaagATGGAAGAAAGGATGACATTATGCAACATGGTTGTTGAAGCTGGAGGAAAGAATGGTGTTGTTCCTGCTGATAGTACTACACATAAGTACCTTGAG
ttttaat putative branch site (score: 3)
ttttattcctctca putative PPT
attatggttttaattg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttcacttttacagatcttcccctgcaaaaatctcaagtcattctgcatttctttctgaaatttgtataatcaaactgcactggattatggttttaattgttttattcctctcaactgaaaagATGGAAGAAAGGATGACATTATGCAACATGGTTGTTGAAGCTGGAGGAAAGAATGGTGTTGTTCCTGCTGATAGTACTACACATAAGTACCTTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT