Sequence
atgc intronic sequence ATGC exonic sequence...ggatctctatgtgcagtgtcctcacaaattactgcatgtgcatcattaagctcttttcatagttacaattcttatcctgatcagatattaatttgagcagGGATGGTGTTAGTGAAGGGCAATTTTATCAAGTGCTACTTTATGAACTAGATGCAATCCGGAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 16
ggatctctatgtgcagtgtcctcacaaattactgcatgtgcatcattaagctcttttcatagtt--acaattcttatcctga-tcagatattaatttgagcagGGATGGTGTTAGTGAAGGGCAATTTTATCAAGTGCTACTTTATGAACTAGATGCAATCCGGAAA
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-tagtgatgtatcacatgtcttcttta--tgttgtaactaaactattattttccttgcaaaactaaatgatgcatatgctaaatttgttgaattttctttcagGGACGGTGTTAGTGAAGGTCAGTTCTATCAAGTTCTCCTTTACGAGTTAGATGCCATCCGGAAG
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA10G00530.1 (Glycine max), 3'ss of exon 8
-ggatctctatgtgcagtgtcctcacaaattactgcatgtgcatcattaagctcttttcatagttacaattcttatcctgatcagatattaatttgagcagGGATGGTGTTAGTGAAGGGCAATTTTATCAAGTGCTACTTTATGAACTAGATGCAATCCGGAAA
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agtataaatttatccagatatgtggggatgtattttgttcaaatcaatatctgctaatttccgaaaca-ttctagtttgtgttaacgagaaatttgaacagGGATGGTGTAAGTGAAGGGCAATTTTACCAAGTTCTACTTTATGAGTTGGATGCAATTCGGAAG
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA10G38770.1 (Glycine max), 3'ss of exon 17
ggatctctatgtgcagtgtcctcacaa-attactgcatgtgcatcattaagctcttttcatagtta-caattcttatcctga--tcagatatt--aatttgagcagGGATGGTGTTAGTGAAGGGCAATTTTATCAAGTGCTACTTTATGAACTAGATGCAATCCGGAAA
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------atgtgtgtgcttacttaggagcatggctttctgaaacatgctagtttgatgaaagagttagttaccggtatattaacattgaatgttgaaatttgaacagGGATGGTGTAAGTGAAGGACAATTTTACCAAGTTTTACTTTATGAGTTAGATGCAATTCGGAAG
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA02G00510.1 (Glycine max), 3'ss of exon 16
--ggatctctatgtgcagtgtcctcacaaattactgcatgtgcatcattaagctcttttcata-gttacaatt-cttatcctgatcagatattaatttgagcagGGATGGTGTTAGTGAAGGGCAATTTTATCAAGTGCTACTTTATGAACTAGATGCAATCCGGAAA
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agagatgtgggggaatgtatttcattcaaatcaatatctcctaattttcaaaacattctagtttgttgaaactgtttgtgtttgcgaga----aatttgaacagGGATGGTGTAAGTGAAGGGCAGTTTTACCAAGTTCTACTTTATGAGTTGGATGCAATTCGGAAG
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA20G28970.1 (Glycine max), 3'ss of exon 17
ggatctctatgtgcagtgtcctcacaa-attactgcatgtgcatcattaagctcttttcatag---ttacaattcttatcctga--tcagatatt--aatttgagcagGGATGGTGTTAGTGAAGGGCAATTTTATCAAGTGCTACTTTATGAACTAGATGCAATCCGGAAA
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--------gtgtgtgcttacttcggagcatggctttctgaaaaacattctagtttgacgaaagagtttgctactggcattttaacattgaatgttgaaatttgaacagGGACGGTGTAAGTGAAGGGCAATTTTACCAAGTTTTACTTTATGAGTTGGATGCGATTCGGAAG
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: PP1S7_194V6.1 (Physcomitrella patens), 3'ss of exon 14
---------------------------------------------------------------------ggatctctatgtgcagtgtcctcacaaattactgcatgtgcatca---ttaagctcttttcatagttaca-attcttatcctgatcagatattaatttgag---cagGGATGGTGTTAGTGAAGGGCAATTTTATCAAGTGCTACTTTATGAACTAGATGCAATCCGGAAA------------------------------------
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gtttgcttcagaactattcacaaactagattatttgcataagttcatgtaaaattcgtgtgtaatgatggtgtttctg-gtgtagttccttgggatgctcccaattaggtctgggggcttagttaaaactaaatgtacgcattgccatgtttgttaactaattctgttggttccagGGATGGAGTTAGTGAAGGGCAGTTTTATCAGGTGCTTCTGTTCGAGCTGGACGCAATCAGGAAAGCTTGCGCTTCCCTTGAACCGGATTACCAGCCTCCAMapped 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|37188618|gb|CF607967.1|CF607967EST: TCCTTTCGGAAGGCGACAGGGCAGAAGCCACTAAGGATTATATTTTACAG GGATGGTGTTAGTGAAGGGCAATTTTATCAAGTGCTACTTTATGAACTAGA
genomic: TCCTTTCGGAAGGCGACAGGGCAGAAGCCACTAAGGATTATATTTTACAGgtcactactt ... atttgagcagGGATGGTGTTAGTGAAGGGCAATTTTATCAAGTGCTACTTTATGAACTAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaagctcttttcatagttacaattcttatcctgatcagatattaatttgagcagGGATGGTGTTAGTGAAGGGCAATTTTATCAAGTGCTACTTTATGAACTAGATGCAATCCGGAAA
tattaat putative branch site (score: 2)
atcagatattaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggatctctatgtgcagtgtcctcacaaattactgcatgtgcatcattaagctcttttcatagttacaattcttatcctgatcagatattaatttgagcagGGATGGTGTTAGTGAAGGGCAATTTTATCAAGTGCTACTTTATGAACTAGATGCAATCCGGAAA
- - - -tatgtgc
- - - - - - - - - -cctcaca
- - - - - - - - - - - - - - - - - catgtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cctgatc