Sequence
atgc intronic sequence ATGC exonic sequencegtattgaagtttcattatctgattaagaagtttttatttcatatacttccccatatccttttctgtgcagCTTGTGGAAACAAGAAAGGGGCGCTGTGGGGAGTGGGCAAATTGCTTTACACTCTATTGTCGAGCTTTTGGTTATGAATCTCGCCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0030g01930.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os07g31460.1 (Oryza sativa), 3'ss of exon 8
-------------------------gtattgaagtttcattatctgattaa---gaagtttttatttca--tatacttccccatatccttttctgtgca-gCTTGTGGAAACAAGAAAGGGGCGCTGTGGGGAGTGGGCAAATTGCTTTACACTCTATTGTCGAGCTTTTGGTTATGAATCTCGCCTG
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gtatgaataagtcctgttattgtgtgagataaggtgttatttttcaaccaaactgaaattgatggtcaaattgtctgttccaatatttattgctttggaagCTTCTAGAAACTAGGAAAGGACGCTGTGGAGAATGGGCCAATTGCTTTACATTCTACTGTCGAAGTTTTGGATATGAAGCTCGTCTG
upper sequence: Vv14s0030g01930.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA19G43320.3 (Glycine max), 3'ss of exon 8
-------------------------gtattgaagtttcattatctgattaagaagtttttatttcatat--acttccccatatccttttctgtgcagCTTGTGGAAACAAGAAAGGGGCGCTGTGGGGAGTGGGCAAATTGCTTTACACTCTATTGTCGAGCTTTTGGTTATGAATCTCGCCTG
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gtattcaactcatgtcaagttgttataatttatatttgggcaacggccaaccacatttatgttatatactgatacttccttctcgttaaatttgcagCTTGTGGAAACAAGAGAGGGCCGCTGTGGGGAATGGGCCAATTGCTTTACGTTATATTGTCGAGCTTTTGGCTATGAGTCACGTCTG
upper sequence: Vv14s0030g01930.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA03G40660.1 (Glycine max), 3'ss of exon 8
---------------------gtattgaagtttcattatctgattaagaa--gtttttatttcatatacttcc-ccatatccttttctgtgcagCTTGTGGAAACAAGAAAGGGGCGCTGTGGGGAGTGGGCAAATTGCTTTACACTCTATTGTCGAGCTTTTGGTTATGAATCTCGCCTG
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gtattcaactcatgtcaagttgtaataatttatatttggccaactgccaatcacatttatgttatatactgaaactcccttgttaaatttgcagCTTGTGGAAACAAGAGAGGGCCGCTGCGGGGAATGGGCCAATTGCTTTACGTTCTATTGTCGAGCTTTTGGCTATGAGTCACGTCTGMapped 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|294965100|gb|GW836931.1|GW836931EST: ACTCCTGCTCAACAATCACTCGGTTCCCACGCTACAATGATCCATTAAAG CTTGTGGAAACAAGAAAGGGGCGCTGTGGGGAGTGGGCAAATTGCTTTACA
genomic: ACTCCTGCTCAACAATCACTCGGTTCCCACGCTACAATGATCCATTAAAGgtattgaagt ... ttctgtgcagCTTGTGGAAACAAGAAAGGGGCGCTGTGGGGAGTGGGCAAATTGCTTTACA
EST:
gi|352765233|gb|FQ465930.1|FQ465930EST: ACTCCTGCTCAACAATCACTCGGTTCCCACGCTACAATGATCCATTAAAG CTTGTGGAAACAAGAAAGGGGCGCTGTGGGGAGTGGGCAAATTGCTTTACA
genomic: ACTCCTGCTCAACAATCACTCGGTTCCCACGCTACAATGATCCATTAAAGgtattgaagt ... ttctgtgcagCTTGTGGAAACAAGAAAGGGGCGCTGTGGGGAGTGGGCAAATTGCTTTACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatctgattaagaagtttttatttcatatacttccccatatccttttctgtgcagCTTGTGGAAACAAGAAAGGGGCGCTGTGGGGAGTGGGCAAATTGCTTTACACTCTATTGTCGAGCTTTTGGTTATGAATCTCGCCTG
atctgat putative branch site (score: 4)
tacttccccatatcct putative PPT
attaagaagtttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattgaagtttcattatctgattaagaagtttttatttcatatacttccccatatccttttctgtgcagCTTGTGGAAACAAGAAAGGGGCGCTGTGGGGAGTGGGCAAATTGCTTTACACTCTATTGTCGAGCTTTTGGTTATGAATCTCGCCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT