Sequence
atgc intronic sequence ATGC exonic sequencegtgatgtcatatgtttgtttgttgcttgaattcttggggtcttccctattggattttatatttgtcctggatggtcacttaattggaattattttatgtcccaacttcagGTGAGAGATGAGACATATACAGCGTTTGAGAACATATACCCTGTCCTTACTGAGTTCCGGAAGAACCAACAATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g00180.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os12g39070.1 (Oryza sativa), 3'ss of exon 7
gtgatgtcatatgtttgtttgttgcttgaattcttggggtcttccctattggattttatatttgtcctggatggtcacttaattggaattattttatgtcccaacttcagGTGAGAGATGAGACATATACAGCGTTTGAGAACATATACCCTGTCCTTACTGAGTTCCGGAAGAACCAACAATG
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----------------gtaagcagcct---ttccttttgtataccctt---gattgtctattcctttttgtatgtc---tgaatgtacttgtctt----------tatagGTGAGGGATGAGACGTATACCGCCTTTGAGAACATATACCCTGTGCTAACAGAGTTCAGAAAAGTCCAGCAATG
upper sequence: Vv06s0004g00180.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os03g45410.1 (Oryza sativa), 3'ss of exon 8
gtgatgtcatatgtttgtttgttgcttgaattcttggggtcttccctattggattttatatttgtcctggatggtcacttaattggaattattttatgtcccaacttca--gGTGAGAGATGAGACATATACAGCGTTTGAGAACATATACCCTGTCCTTACTGAGTTCCGGAAGAACCAACAATG
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-------------------------------gttagcagcctttccttttg-----tatattcttgattgcctattcctt--tttgtatgtctgaatatactgtctttatagGTGAGGGATGAGACGTATACCGCCTTTGAGAACATATACCCTGTGCTAACGGAGTTCAGAAAAGTCCAGCAGTG
upper sequence: Vv06s0004g00180.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA09G41330.1 (Glycine max), 3'ss of exon 8
gtgatgtcatatgtttgtttgttgcttgaattcttggggtcttccctattggattttatatttgtcctggatggtcacttaattggaattattttatgtcccaacttcagGTGAGAGATGAGACATATACAGCGTTTGAGAACATATACCCTGTCCTTACTGAGTTCCGGAAGAACCAACAATG
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----------------gtataataatgg---tcttgggatcttcccatgtacattttagcattttccggctgattcacttacagtgatgttttcattttcgtctctttagGTTAGAGATGAGACTTACACAGCTTTTGAGAACATATATCCAGTGCTTACTGAGTTCAGGAAAAACCAACAATG
upper sequence: Vv06s0004g00180.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA19G28780.1 (Glycine max), 3'ss of exon 8
gtgatgtcatatgtttgtttgttgcttgaattcttggggtcttccctattggattttatatttgtcctggatggtcacttaattggaattattttatgtcc-caacttcagGTGAGAGATGAGACATATACAGCGTTTGAGAACATATACCCTGTCCTTACTGAGTTCCGGAAGAACCAACAATG
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----------------gtataataatgg---tcatgggatcttcccatgtgcattttagcatt--tccggctgattcacttacagtgatggtttcattttggtttctttagGTTAGAGATGAGACTTACACAGCTTTTGAGAACATATATCCAGTGCTTACTGAGTTCAGGAAAAACCAACAATG
upper sequence: Vv06s0004g00180.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA18G44460.1 (Glycine max), 3'ss of exon 7
gtgatgtcatatgtttgtttgttgcttgaattcttggggtcttccctattggattttatatttgtcctggatggtcacttaattggaattattttatgtcccaacttcagGTGAGAGATGAGACATATACAGCGTTTGAGAACATATACCCTGTCCTTACTGAGTTCCGGAAGAACCAACAATG
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--------------------ggtataataatggtcttggatcttcccatgtaattttacattt---tggcattttccggctgatgttttcattttggtttc----tttaGGTTAGAGATGAGACTTACACAGCCTTTGAGAACATATATCCAGTGCTTACTGAGTTCAGGAAAAACCAACAAT-
upper sequence: Vv06s0004g00180.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA03G04500.1 (Glycine max), 3'ss of exon 8
gtgatgtcatatgtttgtttgttgcttgaattcttggggtcttccctattggattttatatttgtcctggatggtcacttaattggaattattttatgtcccaacttcagGTGAGAGATGAGACATATACAGCGTTTGAGAACATATACCCTGTCCTTACTGAGTTCCGGAAGAACCAACAATG
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-----------------------gtaaaaattttgcttatatttccccttgtaatttccctccatttttttggttcactgaattt-atctgttttcaattccattttcagGTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCCTGTGCTTACGGAGTTCAGGAAAAACCAACAATG
upper sequence: Vv06s0004g00180.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA16G25450.3 (Glycine max), 3'ss of exon 8
gtgatgtcatatgtttgtttgttgcttgaattcttggggtcttccctattggattttatatttgtcctggatggtcacttaattggaattattttatgtcccaacttcagGTGAGAGATGAGACATATACAGCGTTTGAGAACATATACCCTGTCCTTACTGAGTTCCGGAAGAACCAACAATG
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-----gtaatatttttgcttat------aattccccccctccccccaatt---tttttggctca--ctggatttttatttatctgt-----tttcatttccattttttagGTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATGMapped 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|110724394|gb|EE100183.1|EE100183EST: TTGTGCTGCTTATCTTTGTGTCAAGGAAAATTGTTCTCACTGGAGCTAAA GTGAGAGATGAGACATATACAGCGTTTGAGAACATATACCCTGTCCTTACT
genomic: TTGTGCTGCTTATCTTTGTGTCAGGGAAAATTGTTCTCACTGGAGCTAAGgtgatgtcat ... ccaacttcagGTGAGAGATGAGACATATACAGCGTTTGAGAACATATACCCTGTCCTTACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatatttgtcctggatggtcacttaattggaattattttatgtcccaacttcagGTGAGAGATGAGACATATACAGCGTTTGAGAACATATACCCTGTCCTTACTGAGTTCCGGAAGAACCAACAATG
acttaat putative branch site (score: 4)
acttaattggaattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgatgtcatatgtttgtttgttgcttgaattcttggggtcttccctattggattttatatttgtcctggatggtcacttaattggaattattttatgtcccaacttcagGTGAGAGATGAGACATATACAGCGTTTGAGAACATATACCCTGTCCTTACTGAGTTCCGGAAGAACCAACAATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC