Sequence
atgc intronic sequence ATGC exonic sequencegtaaagttccagacctgtaggaattgtttgttcacatttttttgaggtactttgcttgctctcagggtaaaaaatacattgttcttaaaggcaaacaaaaactactttaaagatgctgtctcaatggttgtcttaccactacacctctttgagggttcttaatattgaactgattttgttaatttatggaacagGCCAGGAGGATTACAATAGGTTGAGACCTTTGAGCTACCGTGGTGCAGATGTCTTTCTGCTTGCTTTCTCCCTCATTAGCAAGGCTAGCTATGAAAATGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g02380.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM5G846811_T01 (Zea mays), 3'ss of exon 2
gtaaagttccagacctgtaggaattgtttgttcacatttttttgaggtactttgcttgctctcagggtaaaaaatacattgttcttaaaggcaaacaaaaactactttaaagatgctgtctcaatggttgtcttaccactacac-----ctctttgagggttcttaatattgaactgattttgttaattta--tggaacagGCCAGGAGGATTACAATAGGTTGAGACCTTTGAGCTACCGTGGTGCAGATGTCTTTCTGCTTGCTTTCTCCCTCATTAGCAAGGCTAGCTATGAAAATGT
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---------------------------------------------------------------------------------------------gtgaccagctatcctattt-tgttactttgatgcttttcccccctttgtgcatatcctttttccttgtttatcaaaatggttgaacttcatctttgcaactgccgcagGTCAAGAGGATTACAACAGACTGAGACCACTGAGCTATCGTGGAGCTGATGTTTTTCTTCTGGCTTTCTCACTGATCAGTAAGGCCAGCTATGAGAATGT
upper sequence: Vv03s0038g02380.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G03660.1 (Glycine max), 3'ss of exon 2
gtaaagttccagacctgtaggaattgtttgttcacatttttttgaggtactttgcttgctctcagggtaaaaaatacattgttcttaaaggcaaacaaaaactactttaaagatgctgtctcaatggttgtcttaccactacacctctttgagggttcttaatattgaactgattttgttaatttatggaacagGCCAGGAGGATTACAATAGGTTGAGACCTTTGAGCTACCGTGGTGCAGATGTCTTTCTGCTTGCTTTCTCCCTCATTAGCAAGGCTAGCTATGAAAATGT
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---------------------------------------------------------------------------------------------------------------------gtaagtatagtttcccggttatctttcatccttcttgtgttttgtcattgttttgatgttttcaacttatgggacagGCCAAGAAGATTACAATAGATTAAGACCCTTAAGCTATCGTGGAGCAGATGTATTCCTGCTTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGT
upper sequence: Vv03s0038g02380.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G11510.1 (Glycine max), 3'ss of exon 2
gtaaagttccagacctgtaggaattgtttgttcacatttttttgaggtactttgcttgctctcagggtaaaaaatacattgttcttaaaggcaaacaaaaactactttaaagatgctgtctcaatggttgtcttaccactacacctctttgagggttcttaatattgaactgattttgttaatttatggaacagGCCAGGAGGATTACAATAGGTTGAGACCTTTGAGCTACCGTGGTGCAGATGTCTTTCTGCTTGCTTTCTCCCTCATTAGCAAGGCTAGCTATGAAAATGT
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----------------------------------------------------------------------------------------------------------gtaagtatagtttttcc-tggttatctt-tcat----ccttcttgtgttttgtgagtgttttgtcattgttttcaacttatggcacagGCCAAGAAGATTACAATAGATTGAGACCCTTAAGCTATCGTGGAGCAGATGTATTCCTGCTTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGT
upper sequence: Vv03s0038g02380.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S51_114V6.1 (Physcomitrella patens), 3'ss of exon 2
gtaaagttccagacctgtaggaattgtttgttcacatttttttgaggtactttgcttgctctcagggtaaaaaatacattgttcttaaaggcaaacaaaaactactttaaagatgctgtctcaatggttgtcttaccactacacctctttgagggttcttaatattgaactgattttgttaatttatggaacagGCCAGGAGGATTACAATAGGTTGAGACCTTTGAGCTACCGTGGTGCAGATGTCTTTCTGCTTGCTTTCTCCCTCATTAGCAAGGCTAGCTATGAAAATGT
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-------------------------------------------------------------------------------tggtccaacagctgcacatacggtcattca------ctgta-cggtattcatctttgggtgatatcattc----acttcatgtcattgaaaacaattcgcc--ctgattg--cagGTCAAGAAGATTACAACAGGCTTCGTCCTCTGAGTTACAGGGGTGCTGATGTTTTTCTCCTGGCGTTCTCCCTCATCAGCAAGGCTAGTTATGAAAACATMapped 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|27581311|gb|CB004006.1|CB004006EST: TGTTGTGGTGGATGGGAGCACTGTTAATCTAGGGTTGTGGGATACTGCAG GCCAGGAGGATTACAATAGGTTGAGACCTTTGAGCTACCGTGGTGCAGATG
genomic: TGTTGTGGTGGATGGGAGCACTGTTAATCTAGGGTTGTGGGATACTGCAGgtaaagttcc ... tatggaacagGCCAGGAGGATTACAATAGGTTGAGACCTTTGAGCTACCGTGGTGCAGATG
EST:
gi|77585106|gb|DV221640.1|DV221640EST: TGTTGTGGTGGATGGGAGCACTGTTAATCTAGGGTTGTGGGATACTGCAG GCCAGGAGGATTACAATAGGTTGAGACCTTTGAGCTACCGTGGTGCAGATG
genomic: TGTTGTGGTGGATGGGAGCACTGTTAATCTAGGGTTGTGGGATACTGCAGgtaaagttcc ... tatggaacagGCCAGGAGGATTACAATAGGTTGAGACCTTTGAGCTACCGTGGTGCAGATG
EST:
gi|161720989|gb|FC070698.1|FC070698EST: TGTTGTGGTGGATGGGAGCACTGTTAATCTAGGGTTGTGGGATACTGCAG GCCAGGAGGATTACAATAGGTTGAGACCTTTGAGCTACCGTGGTGCAGATG
genomic: TGTTGTGGTGGATGGGAGCACTGTTAATCTAGGGTTGTGGGATACTGCAGgtaaagttcc ... tatggaacagGCCAGGAGGATTACAATAGGTTGAGACCTTTGAGCTACCGTGGTGCAGATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacacctctttgagggttcttaatattgaactgattttgttaatttatggaacagGCCAGGAGGATTACAATAGGTTGAGACCTTTGAGCTACCGTGGTGCAGATGTCTTTCTGCTTGCTTTCTCCCTCATTAGCAAGGCTAGCTATGAAAATGT
tgttaat putative branch site (score: 3)
ttaatattgaactgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaagttccagacctgtaggaattgtttgttcacatttttttgaggtactttgcttgctctcagggtaaaaaatacattgttcttaaaggcaaacaaaaactactttaaagatgctgtctcaatggttgtcttaccactacacctctttgagggttcttaatattgaactgattttgttaatttatggaacagGCCAGGAGGATTACAATAGGTTGAGACCTTTGAGCTACCGTGGTGCAGATGTCTTTCTGCTTGCTTTCTCCCTCATTAGCAAGGCTAGCTATGAAAATGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG