Sequence
atgc intronic sequence ATGC exonic sequencegtacaatgtcaagcttgcacactttatcttatcttgtgcttctttgttttccttgttctttaatgtaccctgctgcagGTTTCTGTAGGAAAAGAAAGAGAAGCTGTTTCAGACATGCTCCCTTATCTGCGATTGGGCTATGTTTCAGATCCATCTGAGATGCAGTCTGTTATCTCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0171g00310.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA05G07100.1 (Glycine max), 3'ss of exon 8
------------------------------gtacaatgtcaagcttgc--acactttatcttatcttgtgcttctttgttttccttgttctttaatgta-ccctgctgcagGTTTCTGTAGGAAAAGAAAGAGAAGCTGTTTCAGACATGCTCCCTTATCTGCGATTGGGCTATGTTTCAGATCCATCTGAGATGCAGTCTGTTATCTCTT
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gtatcaatactgaacctactgttttttttagataagcactgaacctactgttgttgaaggttatttagtgaat---tatctcattaattccttaattcaacctttgtgcagGTATATGCTGGGAAGGAGAGGGAAGCTGTCTTAGATATGCTTCGTTATATGCGTTTGGGCTATGTTTCAGATCCTTCTGAGATGCAGTCTGTCATCTCCT
upper sequence: Vv14s0171g00310.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA19G22520.2 (Glycine max), 3'ss of exon 8
-------------------------------gtacaatgtcaagcttgcac---actttatcttatcttgtgcttctttgt---tttccttg----ttctttaatgta-ccctgctgcagGTTTCTGTAGGAAAAGAAAGAGAAGCTGTTTCAGACATGCTCCCTTATCTGCGATTGGGCTATGTTTCAGATCCATCTGAGATGCAGTCTGTTATCTCTT
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gtatcaatactgaacctactgctgtttatttttattttttttaataagcactgaacctactgttgttgaaggttatttagtgaattttctcattaattccttaattcaacctttgtgcagGTATATGCTGGGAAGGAAAGGGAAGCTGTCTTAGATATGCTTCGTTATATGCGTTTGGGCTATGTTTCAGATCCTTCTGAGATGGAATCTGTCATCTCCT
upper sequence: Vv14s0171g00310.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT5G14260.2 (Arabidopsis thaliana), 3'ss of exon 8
gtacaatgtcaagcttgcacactttatcttatcttgtgcttctttgttttccttgttctttaatgtaccctgctgcagGTTTCTGTAGGAAAAGAAAGAGAAGCTGTTTCAGACATGCTCCCTTATCTGCGATTGGGCTATGTTTCAGATCCATCTGAGATGCAGTCTGTTATCTCTT
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gtatgactttcccatggcaa---caagtctactttgagatgttctgtctgattttggtttt---gcatccatct-cagGTTCGTGTGGGAAAAGAAAGAGAAGCTGTTCAAGACATGCTTCCCTACCTGCGGTTGGGTTACATGTCTGATCCTTCTGAAATGCAGTCAGTAATTTCATMapped 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|27585508|gb|CB008203.1|CB008203EST: AGAGAATGGTTGCTCAAAGAAATGGAAAACTAACAGTGCAAAAATTTCAT GTTTCTGTAGGAAAAGAAAGAGAAGCTGTTTCAGACATGCTCCCTTATCTG
genomic: AGAGAATGGTTGCTCAAAGAAATGGAAAACTAACAGTGCAAAAATTTCATgtacaatgtc ... cctgctgcagGTTTCTGTAGGAAAAGAAAGAGAAGCTGTTTCAGACATGCTCCCTTATCTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatcttatcttgtgcttctttgttttccttgttctttaatgtaccctgctgcagGTTTCTGTAGGAAAAGAAAGAGAAGCTGTTTCAGACATGCTCCCTTATCTGCGATTGGGCTATGTTTCAGATCCATCTGAGATGCAGTCTGTTATCTCTT
ctttaat putative branch site (score: 4)
ccctgct putative PPT
ttctttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacaatgtcaagcttgcacactttatcttatcttgtgcttctttgttttccttgttctttaatgtaccctgctgcagGTTTCTGTAGGAAAAGAAAGAGAAGCTGTTTCAGACATGCTCCCTTATCTGCGATTGGGCTATGTTTCAGATCCATCTGAGATGCAGTCTGTTATCTCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG