Sequence
atgc intronic sequence ATGC exonic sequence...aatgaagaaaaataggagctcaatggacagttatgtcctcctctaatgtgtacccattaacatggacccagggtattaagggaaataaattattttgcagATTGTTACTTTGCGCTGAAGGTATGGAGCGCACAGAACGCGGGAGCTGCTGCTGTTCTGATTGCAGACAACATAGCTGAGACATTCCCGGTGAGCAGACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0040g00700.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ31111 (Selaginella moellendorffii), 3'ss of exon 1
aatgaagaaaaataggagctcaatggacagttatgtcctcctctaatgtgtacccattaacatggacccagggtattaagggaaataaattattttg---cagATTGTTACTTTGCGCTGAAGGTATGGAGCGCACAGAACGCGGGAGCTGCTGCTGTTCTGATTGCAGACAACATAGCTGAGACATTC-CCGGTGAGCAGACA
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--------------------------------------gtaagaaaaattgattcttttgtttggg--tagtggatgaagttcatttccttttcttcttccagATTGCTACTTTGCATTGAAAGTATGGCACGCTCAGCTCGCGGGAGCTGCTGCTGTTCTTGTAGCGGACGACAAAACTGAGCCACTGATCACTATGGATTC-
upper sequence: Vv08s0040g00700.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ30872 (Selaginella moellendorffii), 3'ss of exon 1
aatgaagaaaaataggagctcaatggacagttatgtcctcctctaatgtgtacccattaa-catggacccagggtattaagggaaataaattattt---tgcagATTGTTACTTTGCGCTGAAGGTATGGAGCGCACAGAACGCGGGAGCTGCTGCTGTTCTGATTGCAGACAACATAGCTGAGACATTCCCGGTGAGCAGACA---
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-----------------------------------------------gtgagcccacgattcttccattttgctgctcaattctactaaatttgttctctccagATTGTTACTTCGCTTTGAAGGTTTGGAACGCACAAAACGCTGGAGCGGCTGCTGTACTGGTTGCGGATGATAGATCCGAGCC---TCTGATCACCATGGACTC
upper sequence: Vv08s0040g00700.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ06539 (Selaginella moellendorffii), 3'ss of exon 1
aatgaagaaaaataggagctcaatggacagttatgtcctcctctaatgtgtacccattaacatggacccagggtattaagggaaataaattattttgcagATTGTTACTTTGCGCTGAAGGTATGGAGCGCACAGAACGCGGGAGCTGCTGCTGTTCTGATTGCAGACAACATAGCTGAGACATTC-CCGGTGAGCAGACA
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--------------------------gtaagcaaaatcggttcttttgtttggcta-----gtggatgaagttcatttc------cttttcttcttccagATTGCTACTTTGCATTGAAGGTATGGCACGCTCAGCTCGCGGGAGCTGCTGCGGTTCTTGTAGCGGACGACAAAACTGAGCCACTGATCACTATGGATTC-
upper sequence: Vv08s0040g00700.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ22768 (Selaginella moellendorffii), 3'ss of exon 1
aatgaagaaaaataggagctcaatggacagttatgtcctcctctaatgtgtacccattaacatggacccagggtattaagggaaataaattattttgcagATTGTTACTTTGCGCTGAAGGTATGGAGCGCACAGAACGCGGGAGCTGCTGCTGTTCTGATTGCAGACAACATAGCTGAGACATTCCCGGTGAGCAGACA---
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-----------------------------------------------gtgagctcacgattctttgctcac----ttctactaaatt--tttctctccagATTGTTACTTCGCTTTGAAGGTTTGGAACGCACAAAACGCTGGAGCGGCTGCTGTACTGGTTGCGGATGATAGAACCGAGCC---TCTGATCACCATGGACTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtgtacccattaacatggacccagggtattaagggaaataaattattttgcagATTGTTACTTTGCGCTGAAGGTATGGAGCGCACAGAACGCGGGAGCTGCTGCTGTTCTGATTGCAGACAACATAGCTGAGACATTCCCGGTGAGCAGACA
cattaac putative branch site (score: 2)
ttatttt putative PPT
tattaagggaaataaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatgaagaaaaataggagctcaatggacagttatgtcctcctctaatgtgtacccattaacatggacccagggtattaagggaaataaattattttgcagATTGTTACTTTGCGCTGAAGGTATGGAGCGCACAGAACGCGGGAGCTGCTGCTGTTCTGATTGCAGACAACATAGCTGAGACATTCCCGGTGAGCAGACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - -aaaaata
- - - - - - - - - ctcaatg
- - - - - - - - - - - - - - - - - -tcctcct
- - - - - - - - - - - - - - - - - - - - - - - - - -acccatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catggac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaataaa