Sequence
atgc intronic sequence ATGC exonic sequence...gtcttcatgcttgtggtatcttatatcagactgcccataatcccatactgtccttgtttgaactgttttatttgacaatttgctgtctaatgatttgcagGCTGATCTGCTGGGGAACCCGGTGGTTAGACCAGCTGATATAGAGACAACAGCTCTTGGAGCCGCTTATGCAGCTGGATTAGCAGTGGGGATTTGGACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g07640.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os04g55410.1 (Oryza sativa), 3'ss of exon 3
gtcttcatgcttgtggtatcttatatcagactgcccataatcccatactgtccttgtttgaactgttttatttgacaatt--tgctgtctaatgatttgcagGCTGATCTGCTGGGGAACCCGGTGGTTAGACCAGCTGATATAGAGACAACAGCTCTTGGAGCCGCTTATGCAGCTGGATTAGCAGTGGGGATTTGGACAG
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ggtgtaattgtagctgtagctta-gtgaaacgtttctctttgcaattgtaaaatctctccaaat-tcccataagatcactgattttgcatgcacacctgcagGCTGATTTATTGGGTAGCCCTGTTGTCAGACCTGCTGACATCGAGACAACTGCCCTTGGAGCTGCGTATGCAGCTGGATTAGCTGTTGGAGTCTGGTCGA
upper sequence: Vv09s0002g07640.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G22870.1 (Glycine max), 3'ss of exon 3
gtcttcatgcttgtggtatcttatatcagactgcccataatcccatactgtccttgtttgaactgttttat--ttgacaatttgctgtc--taatgatttgcagGCTGATCTGCTGGGGAACCCGGTGGTTAGACCAGCTGATATAGAGACAACAGCTCTTGGAGCCGCTTATGCAGCTGGATTAGCAGTGGGGATTTGGACAG
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----tactgttaatagttactgaagtgttcatgttcataggttgatgcaaaaccttttttacttttcacataactgataaatttttgttaataatgttctacagGCAGATTTGGTGGGATGTCCAATAATTAGACCTGCTGACATAGAGACAACAGCACTTGGAGCAGCCTATGCTGCAGGATTAGCTATTGGGATTTGGAAAG
upper sequence: Vv09s0002g07640.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA07G03230.1 (Glycine max), 3'ss of exon 2
gtcttcatgcttgtggtatcttatatcag-actgcccataatcccatactgtccttgtttgaactgttt-tatttgacaatttgctgt--ctaatgatttgcagGCTGATCTGCTGGGGAACCCGGTGGTTAGACCAGCTGATATAGAGACAACAGCTCTTGGAGCCGCTTATGCAGCTGGATTAGCAGTGGGGATTTGGACAG
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----tcatgtttgttgagaatcagaataggatcagtttcagattgatgcaaaagctttttacttttcacataactgataattttttgttactaatgttctacagGCAGATTTGGTGGGATGTCCAGTAATTAGACCTGCTGACATAGAGACAACAGCACTTGGAGCAGCCTATGCTGCCGGATTAGCTACTGGGATTTGGAAAGMapped 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|71889544|gb|DT038599.1|DT038599EST: TTAGAGTTGATGGTGGTGCAACCATTAACAATCTTTTGATGCAAATTCAG GCTGATCTGTTGGGGAACCCGGTGGTTAGACCAGCTGATATAGAGACAACA
genomic: TTAGAGTTGATGGTGGTGCAACCATTAACAATCTTTTGATGCAAATTCAGgttcgtattt ... tgatttgcagGCTGATCTGCTGGGGAACCCGGTGGTTAGACCAGCTGATATAGAGACAACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tactgtccttgtttgaactgttttatttgacaatttgctgtctaatgatttgcagGCTGATCTGCTGGGGAACCCGGTGGTTAGACCAGCTGATATAGAGACAACAGCTCTTGGAGCCGCTTATGCAGCTGGATTAGCAGTGGGGATTTGGACAG
gtctaat putative branch site (score: 3)
ttttatttgacaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcttcatgcttgtggtatcttatatcagactgcccataatcccatactgtccttgtttgaactgttttatttgacaatttgctgtctaatgatttgcagGCTGATCTGCTGGGGAACCCGGTGGTTAGACCAGCTGATATAGAGACAACAGCTCTTGGAGCCGCTTATGCAGCTGGATTAGCAGTGGGGATTTGGACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - tcatgct
- - - - - - - - - - - - - - -actgccc
- - - - - - - - - - - - - - - - - - - - -cccatac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgctgtc