Sequence
atgc intronic sequence ATGC exonic sequencegtcagtactgctattgcatttttctttatgctctggaatctggattgttgtttatttgtatattcattgctcattggtgtttctttggcgattctaatggattctgtctccctttgtttaagagttcttgtagTTGGGAGCTGACGTGATTTCCTCAGATGTACCCTTGCTCAGTGTTGATGACCTTGCTGACCAGGTCGCAGAAGTGCTTGATTTCTTTGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0030g01790.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM5G813363_T01 (Zea mays), 3'ss of exon 3
gtcagtactgctattgcatttttctttatgctctggaatctggattgttgtttatttgtatattcattgctcattggtgtttctttggcgattctaatggattctgtctccctttgtttaagagttcttgtagTTGGGAGCTGACGTGATTTCCTCAGATGTACCCTTGCTCAGTGTTGATGACCTTGCTGACCAGGTCGCAGAAGTGCTTGATTTCTTTGG
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---------gtcagtg-atgctggttcaatccctgtgacaaggtgtgctgc--gtctgtatttcga------gttggt--tacttacatgatctt------tgctgtgtggcttttgttaagagtcct-acagATGGGAGCAGCTCCAATGTCGTCAGATGTGCCGGTGCCATCTGTTGATGATCTCGCTGATCAAGTCGCAGATGTGCTTGATTTCTTCAG
upper sequence: Vv14s0030g01790.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G30270.2 (Glycine max), 3'ss of exon 3
gtcagtactgctattgcatttttctttatgctctggaatctggattgttgtttatttgtatattcattgctcattggtgtttctttggcgattctaatggattctgtctccctt----tgtttaagagttcttgtagTTGGGAGCTGACGTGATTTCCTCAGATGTACCCTTGCTCAGTGTTGATGACCTTGCTGACCAGGTCGCAGAAGTGCTTGATTTCTTTGG
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----------------------------------ataacgtctatgaaacataatataagacctcaacgat-gctgtcctctccttgac--cttgagtataatttgactcttttataatttttaagagttattgcagTTGGGAGCTGATGTCATTTCTTCAGATGAACCATTGCTCTGCGTGGATGACCTTGCTGACCAGATTGCAGAAGTGCTTGATTTCTTTGG
upper sequence: Vv14s0030g01790.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G36650.1 (Glycine max), 3'ss of exon 3
gtcagtactgctattgcatttttctttatgctctggaatctggattgttgtttatttgtatattca--ttgctcattggtgtttctttggcgattctaatg-gattctgtctccctttgtttaagagttcttgtagTTGGGAGCTGACGTGATTTCCTCAGATGTACCCTTGCTCAGTGTTGATGACCTTGCTGACCAGGTCGCAGAAGTGCTTGATTTCTTTGG
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------------------------------------taaatagctcagagttgatttggatataaagcttcaagggtgttgtcctctccttgagtataatttgactcttttatcatttgtttaagagttattgcagTTGGGGGCTGATGTCATTTCTTCAGATGAACCATTGCTCTGCGTGGATGACCTTGCTGACCAGATTGCAGAAGTGCTTGATTTCTTTGGMapped 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|33404447|gb|CF210074.1|CF210074EST: TGCTGCTTCATAACTTCTGCATTTACCACATTGATGCTCCTGGACATGAG TTGGGAGCTGACGTGATTTCCTCAGATGTACCCTTGCTCAGTGTTGATGAC
genomic: TGCTGCTTCATAACTTCTGCATTTACCACATTGATGCTCCTGGACATGAGgtcagtactg ... gttcttgtagTTGGGAGCTGACGTGATTTCCTCAGATGTACCCTTGCTCAGTGTTGATGAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttctttggcgattctaatggattctgtctccctttgtttaagagttcttgtagTTGGGAGCTGACGTGATTTCCTCAGATGTACCCTTGCTCAGTGTTGATGACCTTGCTGACCAGGTCGCAGAAGTGCTTGATTTCTTTGG
ttctaat putative branch site (score: 2)
ttcttgt putative PPT
tttgtttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagtactgctattgcatttttctttatgctctggaatctggattgttgtttatttgtatattcattgctcattggtgtttctttggcgattctaatggattctgtctccctttgtttaagagttcttgtagTTGGGAGCTGACGTGATTTCCTCAGATGTACCCTTGCTCAGTGTTGATGACCTTGCTGACCAGGTCGCAGAAGTGCTTGATTTCTTTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT