Sequence
atgc intronic sequence ATGC exonic sequence...gttttagaaaataattaattctcaaagcataatttttaaaaacaattttttaaagtagttttcaactaatctagttcgtgatgggtgttgtttcctttagTTGGATAATTGGGTTCTCTGCCGGATCTACAAGAAATCCAATGCGGTTCCTCCGGCAACAGCAGCGGCCATAGACGACGACCGAGAACAAGAAGATTCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g07670.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S5_359V6.1 (Physcomitrella patens), 3'ss of exon 2
gttttagaaaataattaattctcaaagcataatttttaaaaacaattttttaaagtagttttcaactaatcta-gttcgtgat--gggtgttgtttccttta--gTTGGATAATTGGGTTCTCTGCCGGATCTACAAGAAATCCAATGCGGTTCCTCCG-GCAACAGCAGCGGCCATAGACGACGACCGAGAACAAGAAGATTCTT
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gtctcggtgcctgagtgcatctgcaa--ataatctt---atgcgcatttcataaatattcttcaatgcatgaaagctgatgatttacattttgttttgtgtacagTTGGATGATTGGGTACTCTGCCGGATCTATAAGAAG---AGTACAAATGCGCAGCGTACTGGGAAGGAGCGT-GACAGCTCTTCCTGTGTTGAAGAG----
upper sequence: Vv08s0007g07670.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ07271 (Selaginella moellendorffii), 3'ss of exon 1
--------------------------------------gttttagaaaata-attaattctcaaagcataattttt----aaaaacaattttttaaagtagttttcaactaa--tctagttcgtgatgggtgttgtttcctttagT----TGGATAATTGGGTTCTCTGCCGGATCTACAAGAAATCCAATGCGGTTCCTCCGGCAACAGCAGCGGCCATAGACGACGACCGAGAACAAGAAGATTCTT
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gtaagtgatagagccttgtgtgttcttgagcgttctatgttatattatatggatctgtgttcttggatcaatctctcgcgagggagagttcttttcggcaatcgcgggatgggttttgatgggtttttcttcctctttcttttggtcagCTGGACGACTGGGTTCTCTGCCGGATCTACAAGAAG--CAAT-CGAGCGATTGGAAGAGCCCCGCGGCCTCA----------------------------
upper sequence: Vv08s0007g07670.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ07841 (Selaginella moellendorffii), 3'ss of exon 1
--------------------------------------gttttagaaaata-attaattctcaaagcataattttt----aaaaacaattttttaaagtagttttcaactaa--tctagttcgtgatgggtgttgtttcctttagT----TGGATAATTGGGTTCTCTGCCGGATCTACAAGAAATCCAATGCGGTTCCTCCGGCAACAGCAGCGGCCATAGACGACGACCGAGAACAAGAAGATTCTT---
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gtaagtgatagagccttgtgttttcttgagcgttctatgttatattatatggatctgtgttcttggatcaatctctcgcgagggagaggttttttcggcaatcgcgggatgggttttgatgggtttttcttcctctttcttttggtcagCTGGACGACTGGGTTCTCTGCCGGATCTACAAGAAG--CAAT-CGAGCGATTGGAAGAGCCCCGCGGCCTCACAAGAAGCGCCAAGCCGCGAGAACGTGAAAAMapped 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|110410702|gb|EC976394.1|EC976394EST: ACCCCGCCATCAACAAANNNNNNNTCAAGCTCAGAGATGCATCCATGAGG TTGGATAATTGGGTTCTCTGCCGGATCTACAAGAAATCCAATGCGGTTCCT
genomic: ACCCCGCCATCAACAAACCCCCCCTCAAGCTCAGAGATGCATCCATGAGGgtgagcactc ... tttcctttagTTGGATAATTGGGTTCTCTGCCGGATCTACAAGAAATCCAATGCGGTTCCT
EST:
gi|71871731|gb|DT020786.1|DT020786EST: ACCCCGCCATCAACAAANNNNNNNTCAAGCTCAGAGATGCATCCATGAGG TTGGATAATTGGGTTCTCTGCCGGATCTACAAGAAATCCAATGCGGTTCCT
genomic: ACCCCGCCATCAACAAACCCCCCCTCAAGCTCAGAGATGCATCCATGAGGgtgagcactc ... tttcctttagTTGGATAATTGGGTTCTCTGCCGGATCTACAAGAAATCCAATGCGGTTCCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttttaaagtagttttcaactaatctagttcgtgatgggtgttgtttcctttagTTGGATAATTGGGTTCTCTGCCGGATCTACAAGAAATCCAATGCGGTTCCTCCGGCAACAGCAGCGGCCATAGACGACGACCGAGAACAAGAAGATTCTT
aactaat putative branch site (score: 2)
ttgtttccttt putative PPT
taaagta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttttagaaaataattaattctcaaagcataatttttaaaaacaattttttaaagtagttttcaactaatctagttcgtgatgggtgttgtttcctttagTTGGATAATTGGGTTCTCTGCCGGATCTACAAGAAATCCAATGCGGTTCCTCCGGCAACAGCAGCGGCCATAGACGACGACCGAGAACAAGAAGATTCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - -aaaataa
- - - - - - - - - - - caaagca
- - - - - - - - - - - - - - - - - - - aaaacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caactaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgatgg