Sequence
atgc intronic sequence ATGC exonic sequencegtatgggctttacagttatctgctactactgcaagattaaaccttctgcttcttagtgactcactctttctaacatttctttgcagGAATTGATCCAAGCAAATGGGAGTCAGTATTTGAAAGCTTTGAGCAGGCTGACCCCTCAACAACTCGAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g03680.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA11G08310.1 (Glycine max), 3'ss of exon 8
------------------------------gtatgggctttacagttatctgctactactgcaagattaaacct-tctgcttcttagtgactcactctttctaacatttctttgcagGAATTGATCCAAGCAAATGGGAGTCAGTATTTGAAAGCTTTGAGCAGGCTGACCCCTCAACAACTCGAAC
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gtatgaacctaaaagcttgtctgaaaaacaaaacagaaccgtcccttttgtatcaaaataaaaaaacgatccaagtataaaccacaatgattt--tcttcctatgtatgtgatatagGTATTGACCCAAGCAAATGGGATTCTGTGTTTGAAAGCTTTGAGCAGGCTGATCCATCAACTACACGACT
upper sequence: Vv04s0023g03680.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA01G36950.1 (Glycine max), 3'ss of exon 8
------------------gtatgggctttacagtt-atctgctactactg---caagattaaa--ccttctgcttcttagtgac--tcactct-ttctaacatttctt-tgcagGAATTGATCCAAGCAAATGGGAGTCAGTATTTGAAAGCTTTGAGCAGGCTGACCCCTCAACAACTCGAAC
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gtatgaacctaaaaccttgtctgagaaacaaaacagaaccgtcccttttgtatcaaaataagaagcaatccaagtataaaccacaatgattttcttcctatgtatgtgatatagGTATTGACCCAAGCAAATGGGATTCTGTGTTTGAAAGCTTTGAGCAAGCTGATCCATCAACTACACGACT
upper sequence: Vv04s0023g03680.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA02G05220.1 (Glycine max), 3'ss of exon 8
--------------------------gtatgggctttacagttatc-----tgctactactgcaagattaaaccttctgcttctta-gtgactcac-tctttctaacattt-----------ctttgcagGAATTGATCCAAGCAAATGGGAGTCAGTATTTGAAAGCTTTGAGCAGGCTGACCCCTCAACAACTCGAAC
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gtatgaaccaaaaacttaaatagaaaaactgcattgaaaaaccatcccttttgtggcaaaaggaaaatcaaatttcaggctattgatgtgtttcccatgtttttgacatgtttatgcatccccttcatagGTATTGACCCAAGTAAATGGGAATCTGTGTTTGAAAGCTTTGAGCAAGCTGATCCATCAACTACTAGACT
upper sequence: Vv04s0023g03680.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: EFJ23117 (Selaginella moellendorffii), 3'ss of exon 8
gtatgggctttacagttatctgctactactgcaagattaaaccttctgcttcttagtgactcactctttctaacatttctttg--cagGAATTGATCCAAGCAAATGGGAGTCAGTATTTGAAAGCTTTGAGCAGGCTGACCCCTCAACAACTCGAAC
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------------------------------------gtaagtttgttcc--catgaacacattttctccataacaattatttgagCAGGAATTGATCCAAGCAAATGGGAGACAGTGTTCGATAGTTTCGTCCAAGCAGATACTTCAACAAGTCGAAC
upper sequence: Vv04s0023g03680.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: EFJ20175 (Selaginella moellendorffii), 3'ss of exon 8
gtatgggctttacagttatctgctactactgcaagattaaaccttctgcttcttagtgactcactctttctaacatttctttg--cagGAATTGATCCAAGCAAATGGGAGTCAGTATTTGAAAGCTTTGAGCAGGCTGACCCCTCAACAACTCGAAC
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------------------------------------gtaagtttgttcc--catgaccatattttctccataacaattatttgagCAGGAATTGATCCAAGCAAATGGGAGACAGTGTTCGATAGTTTCGTCCAAGCAGATACTTCAACAAGTCGAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caagattaaaccttctgcttcttagtgactcactctttctaacatttctttgcagGAATTGATCCAAGCAAATGGGAGTCAGTATTTGAAAGCTTTGAGCAGGCTGACCCCTCAACAACTCGAAC
ttctaac putative branch site (score: 1)
catttcttt CT-rich tract
taacattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgggctttacagttatctgctactactgcaagattaaaccttctgcttcttagtgactcactctttctaacatttctttgcagGAATTGATCCAAGCAAATGGGAGTCAGTATTTGAAAGCTTTGAGCAGGCTGACCCCTCAACAACTCGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG