Sequence
atgc intronic sequence ATGC exonic sequence...gggcaaagaatgttttgtttagtttctgttcaattttttgacatttctatgcatttttgttgttatcatgtttacagcaaatggttttatttgatggcagATGATTCTTCCTATTGCTGTTGAAGACGTTAAGCGAGAGGTCAAAATATTAGAAGCGCTTACCGGCCATGAGAATGTGGTTCAGTTCCATAATGCATTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g03420.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os07g22710.1 (Oryza sativa), 3'ss of exon 1
-----gggcaaagaatgttttgtttagtttctgttcaattttttgacatttctatgcatttttgttgttatcatgtttacagcaaatggttttatttgatggcagATGATTCTTCCTATTGCTGTTGAAGACGTTAAGCGAGAGGTCAAAATATTAGAAGCGCTTACCGGCCATGAGAATGTGGTTCAGTTCCATAATGCATTTG
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ctatgctgaattgaagcatcaacagaagtagagaactagcctct-attttgaaaagaaatgatactgctctaacttct----caaatgggatgttttcgttgcagATGGTTCTTCCTGTTGCCGTTGAAGACGTAAAGCGAGAAGTTAAAATACTGAAGGCCTTACAAGGCCATGAAAATGTTGTACATTTTTACAATGCATTTG
upper sequence: Vv04s0023g03420.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G05440.1 (Glycine max), 3'ss of exon 1
----------------gggcaaagaatgttttgtttagtttctgttc----aattttttgacatttctatgcatt-tttgttgttatcatgtttac-agcaaatggtttt----atttgatggcagATGATTCTTCCTATTGCTGTTGAAGACGTTAAGCGAGAGGTCAAAATATTAGAAGCGCTTACCGGCCATGAGAATGTGGTTCAGTTCCATAATGCATTTG
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gtatttatttccgtcaatgccatcggcgttcgttttggtccttaatcttataatgttttcaattcatcgtgttttgtttgtaattttaggaattattaattagttgtgctttaaatttggtggcagATGGTTCTGCCTATTGCCGTTGAGGATGTTAAGCGAGAGGTCAAGATATTGAAAGCACTTACCGGCCATGAGAATGTGGTTCAGTTCTATAATGCTTTTG
upper sequence: Vv04s0023g03420.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA16G23870.1 (Glycine max), 3'ss of exon 3
---gggcaaagaatgtt-ttgtttagtttctgttcaattttttga--catttctatgcatttttgttgttatcatgtttacagcaaatggtttt-------atttgatggcagATGATTCTTCCTATTGCTGTTGAAGACGTTAAGCGAGAGGTCAAAATATTAGAAGCGCTTACCGGCCATGAGAATGTGGTTCAGTTCCATAATGCATTTG
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gtatttccgttaatgccatcgtcgttttgctcctaaatcttataattcaattcatcgtgtttttgtttgtagtttttaggaattaattagttatgctttaaatttggtggcagATGGTTCTGCCTATTGCCGTTGAGGATGTTAAGCGAGAGGTCAAGATATTGAAAGCACTTACTGGCCATGAGAATGTGGTTCAGTTCTATAATGCTTTTG
upper sequence: Vv04s0023g03420.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA11G08180.1 (Glycine max), 3'ss of exon 2
----gggcaaagaatgttttgtttagtttctgttcaattttttgacatttctatgcatttttgttgttatcatgtttacagcaaatggttttatttg--atggcagATGATTCTTCCTATTGCTGTTGAAGACGTTAAGCGAGAGGTCAAAATATTAGAAGCGCTTACCGGCCATGAGAATGTGGTTCAGTTCCATAATGCATTTG
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gctcgttttcagggttttcttattatttatgttccgatttgtt----ttcatatgaagtttcgt-gcattcttgaat-caattcttgaatttggtggcactggcagATGGTTCTCCCCATAGCGGTTGAGGATGTTAAGCGAGAAGTCAAGATATTGAAAGAACTTACAGGCCATGAAAATGTGGTTCAGTTCCATAATGCTTTTG
upper sequence: Vv04s0023g03420.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA01G37100.1 (Glycine max), 3'ss of exon 2
gggcaaagaatgttttgtttagtttctgttcaattttttgacatttctatgcatttttgt-tgttatcatgtttac---agcaaatggttttatttgatggcagATGATTCTTCCTATTGCTGTTGAAGACGTTAAGCGAGAGGTCAAAATATTAGAAGCGCTTACCGGCCATGAGAATGTGGTTCAGTTCCATAATGCATTTG
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----acacaaactctttttcagtgttttcttattatttatgttcccatttgttttcttatgcggtttcgtgcattcctgaatcaatccttgaatttggtggcagATGGTTCTCCCCATTGCGGTTGAGGATGTTAAGCGAGAAGTCAAGATATTGAAAGAACTTACAGGCCATGAAAATGTGGTTCAGTTCTTTAATGCTTTTGMapped 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|71864824|gb|DT013879.1|DT013879EST: ATAAGGCTAATGGGGATCGAGTTGCGGTTAAGAGAATTGAGAAGAATAAG ATGATTCTTCCTATTGCTGTTGAAGACGTTAAGCGAGAGGTCAAAATATTA
genomic: ATAAGGCTAATGGGGATCGAGTTGCGGTTAAGAGAATTGAGAAGAATAAGgtctggtttg ... ttgatggcagATGATTCTTCCTATTGCTGTTGAAGACGTTAAGCGAGAGGTCAAAATATTA
EST:
gi|161721254|gb|FC069680.1|FC069680EST: ATAAGGCTAATGGGGATCGAGTTGCGGTTAAGAGAATTGAGAAGAATAAG ATGATTCTTCCTATTGCTGTTGAAGACGTTAAGCGAGAGGTCAAAATATTA
genomic: ATAAGGCTAATGGGGATCGAGTTGCGGTTAAGAGAATTGAGAAGAATAAGgtctggtttg ... ttgatggcagATGATTCTTCCTATTGCTGTTGAAGACGTTAAGCGAGAGGTCAAAATATTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctatgcatttttgttgttatcatgtttacagcaaatggttttatttgatggcagATGATTCTTCCTATTGCTGTTGAAGACGTTAAGCGAGAGGTCAAAATATTAGAAGCGCTTACCGGCCATGAGAATGTGGTTCAGTTCCATAATGCATTTG
atttgat putative branch site (score: 5)
ttttattt CT-rich tract
atttttgttgttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gggcaaagaatgttttgtttagtttctgttcaattttttgacatttctatgcatttttgttgttatcatgtttacagcaaatggttttatttgatggcagATGATTCTTCCTATTGCTGTTGAAGACGTTAAGCGAGAGGTCAAAATATTAGAAGCGCTTACCGGCCATGAGAATGTGGTTCAGTTCCATAATGCATTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- -caaagaa
- - - - - - - - - - - - - - - - - - - - - - - ctatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcaaatg