Sequence
atgc intronic sequence ATGC exonic sequence...gatcacaatttttctaataaataataattgataatgggtgaaaatttgaaaaggtaagttgttgagttgtgaagaaacggattctgtttaaacgtggcagTTACGTAGAGAGAGAATTGCAGAGAGAATGAAGGCACTGCAGGAACTGGTTCCCAATGCCAACAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0037g00040.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os09g25040.1 (Oryza sativa), 3'ss of exon 3
gatcacaatttttctaataaata-ataattgata-atgggtgaaaatttgaaaaggtaagttgttgagttgtgaaga-aacggattctgtttaaacgtggcagTTACGTAGAGAGAGAATTGCAGAGAGAATGAAGGCACTGCAGGAACTGGTTCCCAATGCCAACAAG
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atgcgagatttcactagctcctacatacctcttccattgttctagatt---attagtgttccaaaaaattatctagttgattttagttatcgatgtttcgcagCTTCGGAGGGAGAGGATCGCCGAGAGGATGAAGGCACTGCAAGAACTGGTTCCCAACGCCAACAAG
upper sequence: Vv11s0037g00040.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G027563_T02 (Zea mays), 3'ss of exon 2
---gatcacaatttttctaataaataataattgataatgggtgaaaatttgaaaaggtaagttgttgagttgtgaagaaacggattctgtttaaacgtggcagTTACGTAGAGAGAGAATTGCAGAGAGAATGAAGGCACTGCAGGAACTGGTTCCCAATGCCAACAAG
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ttgtttcttgggtcgtttgaattgttctcctccgtcccgactcccaacccaacgtcccaaccactgatattcttcccctatcgtcgtcgcc---gttttgcagCTCCGTAGAGAGAGGATCGCGGAGAGGATGAAGGCGCTGCAGGAGCTGGTGTCCAATGCCAACAAG
upper sequence: Vv11s0037g00040.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA09G14380.2 (Glycine max), 3'ss of exon 3
gatcacaatttttctaataaataataattgataatgggtgaaaatttgaaaaggtaagttgttgagttgtgaagaaacggattctgt---ttaaacgtggcagTTACGTAGAGAGAGAATTGCAGAGAGAATGAAGGCACTGCAGGAACTGGTTCCCAATGCCAACAAG
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taataggacagaatcgatttgtttcccgggaagttaagcagaaaat---agtgtttttttttttggttattctgaagttggttgaatatgctgtttgtggcagTTACGAAGGGAGAGAATCGCAGAGAGAATGAAGGCCCTACAGGAACTGGTTCCCAATGCCAACAAG
upper sequence: Vv11s0037g00040.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G33020.1 (Glycine max), 3'ss of exon 3
gatcacaatttttctaataaataataattgataatgggtg-aaaatttgaaaaggtaagttgttgagttgtgaagaaacggattctgtttaaacgtggcagTTACGTAGAGAGAGAATTGCAGAGAGAATGAAGGCACTGCAGGAACTGGTTCCCAATGCCAACAAG
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-ctatccgtttcccgggcagttaagcaaaagcaatgaatatagtgttttttttggttgtgtttgttattctgaagttggttgtatacgttgtttgtggcagTTACGTAGGGAGAGAATCGCCGAGAGAATGAAGGCCCTACAAGAACTGGTTCCCAATGCCAACAAG
upper sequence: Vv11s0037g00040.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA17G08300.1 (Glycine max), 3'ss of exon 3
gatcacaatttttctaataaataataattgataatgggtgaaaatttgaaaaggtaagttgttgag------ttgtgaagaaacggattc----tgtttaaacgtggcagTTACGTAGAGAGAGAATTGCAGAGAGAATGAAGGCACTGCAGGAACTGGTTCCCAATGCCAACAAG
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---------cgtcttaataagacagaatcgctt-tggttggttgtttggtttttccatccttttaacgtttcttgttattaagttgatctggaatattgttgtgtggcagTTACGGAGGGAGAGAATCGCAGAGCGAATGAAGGCCCTACAAGAACTAGTTCCTAATGCCAACAAGMapped 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|294964363|gb|GW838166.1|GW838166EST: GGGCAAGAAGGGGTCAGGCAACTGACCCACACAGCATCGCTGAGAGA TTACGTAGAGAGAGAATTGCAGAGAGAATGAAGGCACTGCAGGAACTGG-T
genomic: GGGCAAGAAGGGGTCAGGCAACTGACCCACACAGCATCGCTGAGAGAgtacgcttca ... aacgtggcagTTACGTAGAGAGAGAATTGCAGAGAGAATGAAGGCACTGCAGGAACTGGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgaaaaggtaagttgttgagttgtgaagaaacggattctgtttaaacgtggcagTTACGTAGAGAGAGAATTGCAGAGAGAATGAAGGCACTGCAGGAACTGGTTCCCAATGCCAACAAG
tgtttaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gatcacaatttttctaataaataataattgataatgggtgaaaatttgaaaaggtaagttgttgagttgtgaagaaacggattctgtttaaacgtggcagTTACGTAGAGAGAGAATTGCAGAGAGAATGAAGGCACTGCAGGAACTGGTTCCCAATGCCAACAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - -aataaat
- - - - - - - - - - - - - - - - - - - -gaaaatt
- - - - - - - - - - - - - - - - - - - - - - - -gaaaagg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaagaaa