Sequence
atgc intronic sequence ATGC exonic sequence...aaaatcactgggagcttacttctaagggacaaggtatcagcgaggtacaaaattttaattttatatcttgagtggaacatgaatggatggctatgtgtagGCTCAGCTAGGGATGTTTTGTGGACAAGAGGTTGGGAATGTGGCAAGCTTTGCACCTTCAAAGGCACACTCCGACCAAACTACTAGTTCTATGTTTGTAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g09500.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G13440.1 (Glycine max), 3'ss of exon 1
-aaaatcactgggagcttacttctaagggacaaggtatcagcgaggtacaaaattttaattttatatcttgagtggaacatgaatggatggctatgtgtagGCTCAGCTAGGGATGTTTTGTGGACAAGAGGTTGGGAATGTGGCAAGCTTTGCACCTTCAAAGGCACACTCCGACCAAACTACTAGTTCTATGTTTGTAA
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tattctgaggtggtggtgagagcataggttgagttaatgacagtgggatgacgttttgttttta-actatgagtggtacatgaatggatggctgtgtgtagGCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTTGCTCCTTCAAGGGGTCCCTCAGAAAATACCACTAGTTCTCTATTTGTTA
upper sequence: Vv17s0000g09500.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA05G02740.1 (Glycine max), 3'ss of exon 1
aaaatcactgggagct--tacttctaagggacaaggtatcagc-gaggtacaaaattttaattttatatcttgagtggaacatgaatggatggctatgtgtagGCTCAGCTAGGGATGTTTTGTGGACAAGAGGTTGGGAATGTGGCAAGCTTTGCACCTTCAAAGGCACACTCCGACCAAACTACTAGTTCTATGTTTGTAA
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-atattccgaggtggtggtgagagcataggttgagttaatgacagtgggatgaagttttattttttaactatgagtggtacatgaatgaatggct--gtgtagGCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTTGCTCCTTCAAGGGGTCCCTCAGAACATACCACTAGTTCTCTATTTGTTA
upper sequence: Vv17s0000g09500.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA04G36360.1 (Glycine max), 3'ss of exon 1
aaaatcactgggagcttacttctaagggacaaggtatcagcgag-gtacaaa--attttaattttatatcttgagtggaacatgaatggatggctatgtgtagGCTCAGCTAGGGATGTTTTGTGGACAAGAGGTTGGGAATGTGGCAAGCTTTGCACCTTCAAAGGCACACTCCGACCAAACTACT--AGTTCTATGTTTGTAA
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--aacccttgttgtttttctgtgatgatttgtgattggggcaagtgcataggttatttttctttta-actttaagtggtgcatgtatggatgactgtgtgtagGCTCAGGTAGGATTGTTTTGTGGACAAGAGGTTGAGAATATTTCAAGCTATGCTCCTTCAGAA-CATCCCCCTAGTTCTCTGTTTAAGGGAGTTGCCCGAA-
upper sequence: Vv17s0000g09500.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA06G18530.1 (Glycine max), 3'ss of exon 1
aaaatcactgggagcttacttctaagggacaaggtatcagcgag-gtacaaa--attttaattttatatcttgagtggaacatgaatggatggctatgtgtagGCTCAGCTAGGGATGTTTTGTGGACAAGAGGTTGGGAATGTGGCAAGCTTTGCACCTTCAAAGGCACACTCCGACCAAACTACT--AGTTCTATGTTTGTAA
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--agcccttgttatttttctgtgatgatttgtgattggggcaagtgcataggttattttcctttta-actttaagtggtgcatgtatgggtgactgtgtgtagGCTCAGGTAGGATTGTTTTGTGGACAAGAGGTTGAGAATATTTCAAGCTTTGCTCCTTCAGAA-CATCCCCCTAGTTCTCTGTTTAAGGGAGTTGCTCGAA-
upper sequence: Vv17s0000g09500.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT4G24740.1 (Arabidopsis thaliana), 3'ss of exon 1
aaaatcactgggagcttac--ttctaagggacaaggtatcagcgaggtacaaaattttaattttatatcttgagtggaacatga--atggatggctatgtgtagGCTCAGCTAGGGATGTTTTGTGGACAAGAGGTTGGGAATGTGGCAAGCTTTGCACCTTCAAAGGCACACTCCGACCAAACTACTAGTTCTATGTTTGTAA---
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---acccttaaggttttaagatagtaaatgactctgaacgagtc-ggcgtagaaggatagtggcaggttttcatctgtctgttatggtacatgaatatgtgtagGCTCAGGTAGGAATGTTTTGTGGGCAAGAGATTGGAAATATATCAAGCTTTGCATCTTCCGGAGCTCCTTCAGACAA---TAGTAGCTCTCTTTGTGTTAAGGMapped 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|71858663|gb|DT007718.1|DT007718EST: CGAGGAAGAGGCCGCGTTTGGGATGGGATGTTCTTCCTCAGGCTCCAAAG GCTCAGCTAGGGATGTTTTGTGGACAAGAGGTTGGGAATGTGGCAAGCTTT
genomic: CGAGGAAGAGGCCGCGTTTGGGATGGGATGTTCTTCCTCAGGCTCCGAAGgtatcagatc ... ctatgtgtagGCTCAGCTAGGGATGTTTTGTGGACAAGAGGTTGGGAATGTGGCAAGCTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacaaaattttaattttatatcttgagtggaacatgaatggatggctatgtgtagGCTCAGCTAGGGATGTTTTGTGGACAAGAGGTTGGGAATGTGGCAAGCTTTGCACCTTCAAAGGCACACTCCGACCAAACTACTAGTTCTATGTTTGTAA
ttttaat putative branch site (score: 3)
aattttaattttatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaatcactgggagcttacttctaagggacaaggtatcagcgaggtacaaaattttaattttatatcttgagtggaacatgaatggatggctatgtgtagGCTCAGCTAGGGATGTTTTGTGGACAAGAGGTTGGGAATGTGGCAAGCTTTGCACCTTCAAAGGCACACTCCGACCAAACTACTAGTTCTATGTTTGTAA
aaaatca
- - - - - - - - - - - - - ggacaagg
- - - - - - - - - - - - - - - - - - - - - - - acaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaacatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggatgg