Sequence
atgc intronic sequence ATGC exonic sequencegtaagtgtaaaaatgccagcgctttttattttattttattatttatttattattattatatttttataagttgaatttttcaatcattgctttctttcttaaactagactgtgagccatagtatgggtgatgtcctttcagGTTGGTTGGTGTTGGTGAGGCTTCATTCGTAAGTCTTGCAGCTCCATTTATAGATGACAATGCTCCTGTCACTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0205g00120.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os04g44430.1 (Oryza sativa), 3'ss of exon 3
gtaagtgtaaaaatgccagcgctttttattttattttattatttatttattattatta-tatttttataagttgaatttttcaatcattgctt-tctttcttaaactagactgtgagccatagtatgggtgatgtcctttcagGTTGGTTGGTGTTGGTGAGGCTTCATTCGTAAGTCTTGCAGCTCCATTTATAGATGACAATGCTCCTGTCACTCAG
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----------------------------------gtaagtaccttgtcattgtgaataatcaattcatgtttcagatctgttacttaaaataaatcttactctgataatgacacgaacaattctccaattattgttactt-agGTTAGTTGGTGTTGGTGAAGCATCATTTATAAGTCTTGCAGCTCCATTCATTGATGATAATGCTCCAGCAGCACAG
upper sequence: Vv07s0205g00120.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G164743_T01 (Zea mays), 3'ss of exon 4
gtaagtgtaaaaatgccagcgctttttattttattttattatttatttattattattatatttt-tataagttga-atttttcaatcattgctttctttcttaaactagactgtgagccatagtatgggtgatgtcctttcagGTTGGTTGGTGTTGGTGAGGCTTCATTCGTAAGTCTTGCAGCTCCATTTATAGATGACAATGCTCCTGTCACTCAG
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------------------------------------------gtaagtatcattgctatatcaagtacctgctaagaaagatttattgctactcttctaatcaca-tggccatttattcaaacttttgatttgatact--cagGTTTGTGGGCGTTGGCGAAGCTTCATTTATAAGTCTTGCAGCTCCATTTATTGATGACAATGCACCAGTAGCTCAG
upper sequence: Vv07s0205g00120.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G062024_T01 (Zea mays), 3'ss of exon 4
gtaagtgtaaaaatgccagcgctttttattttattttattatttatttattattattatatttttataagttgaatttttcaatcattgctttctttcttaaactagactgtgagccatagtatgggtgatgtcctttcagGTTGGTTGGTGTTGGTGAGGCTTCATTCGTAAGTCTTGCAGCTCCATTTATAGATGACAATGCTCCTGTCACTCAG
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-------------------------gtaagt-gctttatcatt-gctaccaactatcaagtatctgttaagaaagatt------cattggcactcttct--aatcacattgtcatttat--tcaaaatttttgaaactcagGTTTGTTGGCGTTGGCGAAGCTTCATTTATAAGTCTCGCAGCTCCATTCATTGATGACAATGCACCGGTAGCTCAG
upper sequence: Vv07s0205g00120.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA09G33680.1 (Glycine max), 3'ss of exon 4
gtaagtgtaaaaatgccagcgctttttattttattttattatttatttattattattatatttttataagttgaatttttcaatcattgctttctttcttaaactagactgtgagcc-atagtatgggtgatgtcctttcagGTTGGTTGGTGTTGGTGAGGCTTCATTCGTAAGTCTTGCAGCTCCATTTATAGATGACAATGCTCCTGTCACTCAG
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-----------------------------------------gtaagtgaatgttttggtactttcaacttttcaaagccttaatactt--taccggtttcatgccatattttgatttgagattgacagcagtttttttgcagGCTAGTTGGTGTAGGTGAGGCTTCCTTCATAAGTCTTGCCGCACCATTTATAGATGACAATGCCCCTGATGCACAG
upper sequence: Vv07s0205g00120.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT2G22730.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaagtgtaaaaatgccagcgctttttattttattttattatttatttattattattatatttttataagttgaatttttcaatcattgctttctttcttaaactagactgtgagccatagtatgggtgatgtcctttcagGTTGGTTGGTGTTGGTGAGGCTTCATTCGTAAGTCTTGCAGCTCCATTTATAGATGACAATGCTCCTGTCACTCAG
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---------------------------------gtaagttgtttagtaaaccttatgattgattt-tgttttgttttcgccatatgcgaacttttgtc----attgga-tgcaaatactcttattatta-----ctcctagGTTCGTTGGTGTAGGTGAAGCTTCTTTCATTAGTCTTGCAGCTCCATTTATAGATGACAATGCTCCTCAAGAACAGMapped 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|34546196|gb|CF514428.1|CF514428EST: CCGGTTGTGGCTCTTCATTTGA-TTTTGATCTTANTGCAATATTTCGCAT GTTGGTTGGTGTTGGTGAGGCTTCATTCGTAAGTCTTGCAGCTCCATTTAT
genomic: CTGGTTGTGGCTCTTCATTTGATTTTTGGTC-TATTGCAATATTTCGCATgtaagtgtaa ... gtcctttcagGTTGGTTGGTGTTGGTGAGGCTTCATTCGTAAGTCTTGCAGCTCCATTTAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgctttctttcttaaactagactgtgagccatagtatgggtgatgtcctttcagGTTGGTTGGTGTTGGTGAGGCTTCATTCGTAAGTCTTGCAGCTCCATTTATAGATGACAATGCTCCTGTCACTCAG
tgtcctttc CT-rich tract
tttcttaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtgtaaaaatgccagcgctttttattttattttattatttatttattattattatatttttataagttgaatttttcaatcattgctttctttcttaaactagactgtgagccatagtatgggtgatgtcctttcagGTTGGTTGGTGTTGGTGAGGCTTCATTCGTAAGTCTTGCAGCTCCATTTATAGATGACAATGCTCCTGTCACTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC