Sequence
atgc intronic sequence ATGC exonic sequence...cctgtatgattagtatcgtattgtcatttgttcttgtatttctaatttgggtaggcaatcatattttctgagattctgggttggtttattttgattgcagGTAAGATCGCTGACACTTGATGTTAAAGTGTGGGAGCCTTCTGTATTAACTCTGTTTCAGTCTCTGGGCAATACCTTCGCTAATTCAGTTTGGGAGGAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0150g00030.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: LOC_Os08g42530.1 (Oryza sativa), 3'ss of exon 15
cctgtatgatt-agtatcgtattgtcatt-tgt-tcttgtatttctaatttgggtaggcaatcatattttctgagattctgggttggtttattttgattgcagGTAAGATCGCTGACACTTGATGTTAAAGTGTGGGAGCCTTCTGTATTAACTCTGTTTCAGTCTCTGGGCAATACCTTCGCTAATTCAGTTTGGGAGGAAC
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tatatttcattgaatattcaaatgtcgttgtgcattttggtttagtcattttagtat-cattaactattttatagaacttaagt--gtacattatattggcagGTAAGATCTCTGACGCTTGATGTCAGAGTGTGGGAACCATCTGTAATCAATCTCTTTCAATCATTAGGCAACAAGTTTGTCAATGATGTTTGGGAAGAAG
upper sequence: Vv01s0150g00030.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GRMZM2G059994_T01 (Zea mays), 3'ss of exon 9
cctgtatgattagtatcgtattgtcatttgttcttgtatttctaatttgggtaggcaatcatattttctgag----attctgggttggtttattttgattgcagGTAAGATCGCTGACACTTGATGTTAAAGTGTGGGAGCCTTCTGTATTAACTCTGTTTCAGTCTCTGGGCAATACCTTCGCTAATTCAGTTTGGGAGGAAC
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-tcgtttttatagcttagtatcat--ttttctattgctaatttaggataattatatacttattttgatagaatagtagcctaaacacatgcatctt-atttcagGTTAGATCTCTGACACTTGATGTTAGAGTTTGGGAGCCATCTGTAATCAATCTCTTTCAGTCATTAGGCAACATGTTTGTCAACAGTATTTGGGAAGAGA
upper sequence: Vv01s0150g00030.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GRMZM5G804247_T02 (Zea mays), 3'ss of exon 6
cctgtatgattagtatcgtattgtcatttgttcttgtatttctaatttggg-taggcaatcatattttctga---gattctgggttgg-tttat---tttgattgcagGTAAGATCGCTGACACTTGATGTTAAAGTGTGGGAGCCTTCTGTATTAACTCTGTTTCAGTCTCTGGGCAATACCTTCGCTAATTCAGTTTGGGAGGAAC
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----cgttttttatagcttagtatcattt----ttctattgctaatttaggatagttatatatttattttgatagaatagtagcctaaacacatgcatcttatttcagGTTAGATCTCTGACACTTGATGTCAGAGTTTGGGAGCCATCTGTAATCAATCTCTTTCAGTCATTAAGCAACATGTTTGTCAACAGTATTTGGGAAGAGA
upper sequence: Vv01s0150g00030.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA18G51810.1 (Glycine max), 3'ss of exon 15
cctgtatgattagtatcgtattgtcatttgttcttgtatttctaatttgggt--aggcaatcatattttctgagattctgggttggtttattttgattgcagGTAAGATCGCTGACACTTGATGTTAAAGTGTGGGAGCCTTCTGTATTAACTCTGTTTCAGTCTCTGGGCAATACCTTCGCTAATTCAGTTTGGGAGGAAC
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-agttttagctggttatatatttaagttttagctgtcacttctattttgtgatgaggcagtaatatattgatcatctcgctcctttttctctattgttacaGGTCAGGTCTCTTACATTGGATGTTAAAGTGTGGGAACCTTCTGTCATAAGTTTATTTCAGTCTCTTGGGAATACTTTTGCCAACTCAGTCTGGGAGGAA-
upper sequence: Vv01s0150g00030.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA08G28890.2 (Glycine max), 3'ss of exon 15
--cctgtatgattagtatcgtattgtcatttgttcttgtatttctaatttgggtaggcaatcatattttctgagattctgggttggtttattttgattgcagGTAAGATCGCTGACACTTGATGTTAAAGTGTGGGAGCCTTCTGTATTAACTCTGTTTCAGTCTCTGGGCAATACCTTCGCTAATTCAGTTTGGGAGGAAC
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caattgaagttttagc-tggttagatttttagatcttagctgtc-acttctattttgtgatgaggctgtaatatattgatcattttttttctattgttacagGTCAGGTCTCTTACATTGGATGTTAAAGTGTGGGAACCTTCTGTCATAAGTTTATTTCAGTCACTTGGAAATACTTTTGCCAACTCAGTCTGGGAGGAATMapped 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|110724222|gb|EE099871.1|EE099871EST: GCATTGAATGTTCTGGTGTTCATCGTAATCTTGGTGTACATATATCAAAA GTAAGATCGCTGACACTTGATGTTAAAGTGTGGGAGCCTTCTGTATTAACT
genomic: GCATTGAATGTTCTGGTGTTCATCGTAATCTTGGTGTACATATATCAAAGgtaagttgtc ... ttgattgcagGTAAGATCGCTGACACTTGATGTTAAAGTGTGGGAGCCTTCTGTATTAACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgggtaggcaatcatattttctgagattctgggttggtttattttgattgcagGTAAGATCGCTGACACTTGATGTTAAAGTGTGGGAGCCTTCTGTATTAACTCTGTTTCAGTCTCTGGGCAATACCTTCGCTAATTCAGTTTGGGAGGAAC
ttttgat putative branch site (score: 4)
tttatttt CT-rich tract
tttattttgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cctgtatgattagtatcgtattgtcatttgttcttgtatttctaatttgggtaggcaatcatattttctgagattctgggttggtttattttgattgcagGTAAGATCGCTGACACTTGATGTTAAAGTGTGGGAGCCTTCTGTATTAACTCTGTTTCAGTCTCTGGGCAATACCTTCGCTAATTCAGTTTGGGAGGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
-ctgtatg
- - - - - - - - - - - - - - - - - - - - - - - - - gtaggca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gggttgg