Sequence
atgc intronic sequence ATGC exonic sequencegtatcccctattagatctcgcaacccaattatgtgttcaaaactcgtgtgaattgaatgttgagtgtttgctttggcagGCATGGCTGTTGTTCCTTTACACAGGTTTAGCTTTGCGAGAGAACATCTTAAGAGTGAATGGAAGTGATATTCGTCCATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g03210.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os08g05660.1 (Oryza sativa), 3'ss of exon 4
--------gtatcccctattagatctcgcaacc--------caattatgtgttcaaaactcgtgtgaattga--------atgttgagtgt---ttgc-tttggcagGCATGGCTGTTGTTCCTTTACACAGGTTTAGCTTTGCGAGAGAACATCTTAAGAGTGAATGGAAGTGATATTCGTCCATG
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gtagactgatgcttattcatggacattgcaaacagtttaacctatcttatgttttatgc-catgccaaaagactaaactgacagtgagcataccttatattttacagGCTTGGTTGTTGTTTCTGTATACAACTTTAGCTCTGCGAGAGAACATATTACGAGTTAATGGAAGTGATATCCGTCCTTG
upper sequence: Vv02s0025g03210.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G154328_T01 (Zea mays), 3'ss of exon 4
------------------------gtatcccctattagatctcgcaacccaattatgtgttcaaaactcgtgtgaattgaatgttgagtgtttgctttggcagGCATGGCTGTTGTTCCTTTACACAGGTTTAGCTTTGCGAGAGAACATCTTAAGAGTGAATGGAAGTGATATTCGTCCATG
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gtacactctaatgcttgcttgcggcgatgcagcattagttgaattaatcatatgtttcatgtcatgccaaaagacactga-tatctcaaattaccttgtatagGCTTGGTTATTATTCCTGTATACCAGTTTAGCTTTGCGTGAGAACATACTGCGAGTTAATGGAAGTGATATTCGTCCTTG
upper sequence: Vv02s0025g03210.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G44190.3 (Glycine max), 3'ss of exon 3
------------------------------------gtatcccctattagatctcgcaacccaattatgtgttcaaaactcgtgtgaattgaatgttgagtgtttgctttggcagGCATGGCTGTTGTTCCTTTACACAGGTTTAGCTTTGCGAGAGAACATCTTAAGAGTGAATGGAAGTGATATTCGTCCATG
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gtattttcttttaaacccctctcgttttatgtgatgttagtatttatttgcttgcatggtaaaat-atttgtcagcaatctatc---attgagtattatcatttgtcatcatcagGCGTGGCTGCTATTCCTTTACACCGGTTTGGCATTGCGAGAGAACATATTGAGAGTCAATGGAAGTGATATTCGTCCCTG
upper sequence: Vv02s0025g03210.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA20G38960.2 (Glycine max), 3'ss of exon 4
-----------------------------------gtatcccctattagatctcgcaacccaattatgtgttcaaaactcgtgtgaattgaatgttgagtgtttgctttggcagGCATGGCTGTTGTTCCTTTACACAGGTTTAGCTTTGCGAGAGAACATCTTAAGAGTGAATGGAAGTGATATTCGTCCATG
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gtattttcttttaaacctcttcattttatgtcaggttagtatttatttgcttgcatgatgaaat-atttgtcagcaatctgtc---attgagtattatcatttgtcatcatcagGCCTGGCTGCTATTCCTTTACACCGGTTTGGCATTGCGAGAGAACATATTGAGAGTCAATGGAAGTGATATTCGTCCCTGMapped 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|161716994|gb|FC068451.1|FC068451EST: CTTGGATATGGGATGGTTGCTTGCCAACGTTTCCAGTTCAGCTGTACCAG GCATGGCTGTTGTTCCTTTACACA
genomic: CTTGGATATGGGATGGTTGCTTGCCAACGTTTCCAGTTCAGCTGTACCAGgtatccccta ... gctttggcagGCATGGCTGTTGTTCCTTTACACA
EST:
gi|30326618|gb|CD009880.1|CD009880EST: CTTGGATATGGGATGGTTGCTTGCCAACGTTTCCAGTTCAGCTGTACCAG GCATGGCTGTTGTTCCTTTACACAGGTTTAGCTTTGCGAGAGAACATCTTA
genomic: CTTGGATATGGGATGGTTGCTTGCCAACGTTTCCAGTTCAGCTGTACCAGgtatccccta ... gctttggcagGCATGGCTGTTGTTCCTTTACACAGGTTTAGCTTTGCGAGAGAACATCTTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccaattatgtgttcaaaactcgtgtgaattgaatgttgagtgtttgctttggcagGCATGGCTGTTGTTCCTTTACACAGGTTTAGCTTTGCGAGAGAACATCTTAAGAGTGAATGGAAGTGATATTCGTCCATG
tttgcttt CT-rich tract
aattgaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatcccctattagatctcgcaacccaattatgtgttcaaaactcgtgtgaattgaatgttgagtgtttgctttggcagGCATGGCTGTTGTTCCTTTACACAGGTTTAGCTTTGCGAGAGAACATCTTAAGAGTGAATGGAAGTGATATTCGTCCATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG