Sequence
atgc intronic sequence ATGC exonic sequencegtatgtttcgtttctgcatctgtttctgttaatttatacttcacatgttctacggtttacagaacaaatgatagaagtattttattttccctcaaattgggaagaacaaaacgtaaaatttgtagcaatgtgaataacaagaagttgaaaattgtgacaagtatggaaacaacattctgaattggacttgttcccagTTCGCGGGAGGCTTTGATGCGGAGAGCATGAAGGTTTTTGAAGAACTGAGGAGCCGTGTGAAAACACAAACAGGCGAAGACAACAAGCTAGAAACATGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g02860.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA01G22620.1 (Glycine max), 3'ss of exon 8
gtatgtttcgtttctgcatctgtttctgttaatttatacttcacatgttctacggtttacagaacaaatgatagaagtattttattttccctcaaattgggaagaacaaaacgtaaaatttgtagcaatgtgaataacaagaagttgaaaattgtgacaagtatggaaacaacattctgaattggacttgttcccagTTCGCGGGAGGCTTTGATGCGGAGAGCATGAAGGTTTTTGAAGAACTGAGGAGCCGTGTGAAAAC---ACAAACAGGCGAAGACAACAAGCTAGAAACATGAG
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----------------------------------------------------------------------------------------------taatgtgaaaatttg--ttgaacacccggaacaatacacacta-atgatggtgaggaccattcaaaataaaaacaactaatgatggtgtggaactcttttcagTTTGCAGGAGGCTTTGATGCAGAGAGCATGAAGGCTTTTGAAGAACTAAGGAGCCGCATCCAAACCTCTCAAGCTGGTGAAGATAGCAAATCAGAAACTT---
upper sequence: Vv01s0011g02860.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA20G32630.1 (Glycine max), 3'ss of exon 7
gtatgtttcgtttctgcatctgtttctgttaatttatacttcacatgttctacggtttacagaacaaatgatagaagtattttattttccctcaaattgggaagaacaaaacgtaaaatttgtagcaatgtgaataacaagaagttgaaaattgtgacaagtatggaaacaacattctgaattggacttgttcccagTTCGCGGGAGGCTTTGATGCGGAGAGCATGAAGGTTTTTGAAGAACTGAGGAGCCGTGTGAAAACACA---AACAGGCGAAGACAACA--AGCTAGAAACATGAG
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----------------------------------------------------------------------------------------ccgacccatttgacagttctaaat-tgaaatatatga-aatctatattatcaaacattggga--tacaa-aaataatgagttaat----tagagtggaactcttttcagTTTGCAGGAGGCTTTGATACGGAGAGCATGAAAGTTTTTGAAGAACTAAGGAGCCGCATCCATGCTCCTCCACCAGGTGAAGATAATAATAACCAGAAAC-----
upper sequence: Vv01s0011g02860.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA02G11260.1 (Glycine max), 3'ss of exon 8
gtatgtttcgtttctgcatctgtttctgttaatttatacttcacatgttctacggtttacagaacaaatgatagaagtattttattttccctcaaattgggaagaacaaaacgtaaaatttgtagcaatgtgaataacaagaagttgaaaattgtgacaagtatggaaacaacattctgaattggacttgttcccagTTCGCGGGAGGCTTTGATGCGGAGAGCATGAAGGTTTTTGAAGAACTGAGGAGCCGTGTGAAAAC---ACAAACAGGCGAAGACAACAAGCTAGAAACATGAG
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-------------------------------------------------------------------------------------------gcatacttctaataaagctatttaatatggatgtt--tgtcaaaggcgtaatgtgaaaatttgtttaacacccggaa-taatatggtg---tggtactctcttcagTTTGCAGGAGGCTTTGATGCAGAGAGCATGAAGGCTTTTGAAGACCTAAGGAACCGCATCCAAGCCTCTCAGGCTGGTGAAGATAACAAAACAGAAACAT---Mapped 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|352768423|gb|FQ469599.1|FQ469599EST: GAGAGTTTTTGATTCTGCAAGGCGTGCGTTTTGCTTTCCGTGTTCATCAG TTCGCGGGAGGCTTTGATGCGGAGAGCATGAAGGTTTTTGAAGAACTGAGG
genomic: GAGAGTTTTTGATTCTGCAAGGCGTGCGTTTTGCTTTCCGTGTTCATCAGgtatgtttcg ... ttgttcccagTTCGCGGGAGGCTTTGATGCGGAGAGCATGAAGGTTTTTGAAGAACTGAGG
EST:
gi|18458157|gb|BM436435.1|BM436435EST: GAGAGTTTTTGATTCTGCAAGGCGTGCGTTTTGCTTTCCGTGTTCATCAG TTCGCGGGAGGCTTTGATGCGGAGAGCATGAAGGTTTTTGAAGAACTGAGG
genomic: GAGAGTTTTTGATTCTGCAAGGCGTGCGTTTTGCTTTCCGTGTTCATCAGgtatgtttcg ... ttgttcccagTTCGCGGGAGGCTTTGATGCGGAGAGCATGAAGGTTTTTGAAGAACTGAGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttgaaaattgtgacaagtatggaaacaacattctgaattggacttgttcccagTTCGCGGGAGGCTTTGATGCGGAGAGCATGAAGGTTTTTGAAGAACTGAGGAGCCGTGTGAAAACACAAACAGGCGAAGACAACAAGCTAGAAACATGAG
cttgttccc CT-rich tract
aaaattgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtttcgtttctgcatctgtttctgttaatttatacttcacatgttctacggtttacagaacaaatgatagaagtattttattttccctcaaattgggaagaacaaaacgtaaaatttgtagcaatgtgaataacaagaagttgaaaattgtgacaagtatggaaacaacattctgaattggacttgttcccagTTCGCGGGAGGCTTTGATGCGGAGAGCATGAAGGTTTTTGAAGAACTGAGGAGCCGTGTGAAAACACAAACAGGCGAAGACAACAAGCTAGAAACATGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT