Sequence
atgc intronic sequence ATGC exonic sequencegtactttcctaagtttcctcctggaatattgctctcatttcaaatactaatcatattcaatgtttaatgttgcaatgtgcagggttataatttctatttcatacattatgttcttatatcgttttattagaatttcctgatgttgaatatttcagGTGAGAGCATTGCACTACTTGCACTCCAACCGTATCATACATCGAGATATGAAGCCACAAAATATTCTCATTGGTGCTGGTTCTATTGTTAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0039g02400.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os12g24550.1 (Oryza sativa), 3'ss of exon 5
gtactttcctaagtttcctcctggaatattgctctcatttcaaatactaatcatattcaatgtttaatgttgcaatgtgcagggttataatttctatttcatacatta-tgttcttatatcgttttattagaatttcctgatgttgaatatttcagGTGAGAGCATTGCACTACTTGCACTCCAACCGTATCATACATCGAGATATGAAGCCACAAAATATTCTCATTGGTGCTGGTTCTATTGTTAAG
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------------------------------------------------------------------------gtatgcactaaaaagtttcttgtttcttacacactactggacttctctggttgtcttcatttcagcaaatctcct-tatttcagGTTAAGGCACTGCATTACTTGCACTCCAATCGTATTATCCATCGGGATATGAAACCTCAGAACATCCTTATTGGGAAAGGATCTGTTGTCAAG
upper sequence: Vv16s0039g02400.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G22860.1 (Glycine max), 3'ss of exon 4
gtactttcctaagtttcctcctggaatattgctctcatttcaaatactaatcatattcaatgtttaat-gttgcaatgtgcagggttataatttctatttcatacattatgttcttatatcgttttattagaatttcctgatgttgaatatttcagGTGAGAGCATTGCACTACTTGCACTCCAACCGTATCATACATCGAGATATGAAGCCACAAAATATTCTCATTGGTGCTGGTTCTATTGTTAAG
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-------------------------------gtatttcctctaaaac-atctttgctctgtttttaatagcatttagatgaagagatatgaaa--------ataaatcttattttggcagaagttcatt-------tttggt-ttggattatgcagGTAAAAGCCTTACATTATTTGCATTCCAATCGGATCATCCATCGTGATATGAAGCCCCAAAATATTCTAATTGGTGCTGGATCTATTGTCAAG
upper sequence: Vv16s0039g02400.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA20G16860.1 (Glycine max), 3'ss of exon 4
gtactttcctaagtttcctcctggaatattgctctcatttcaaatactaatcatattcaatgtttaatgttgcaatgtgcagggttataatttctatttcatacattatgtt--cttatatcgttttattagaatttcctgatg---ttgaatatttcagGTGAGAGCATTGCACTACTTGCACTCCAACCGTATCATACATCGAGATATGAAGCCACAAAATATTCTCATTGGTGCTGGTTCTATTGTTAAG
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----------------------------------------------------gtatttcctcttaaacatctttgctctgtttttcatagcatttagatgaggagatatgaagattaatattattttggcagaagttcatttttggtttgaattatgcagGTAAAAGCCTTACATTATTTGCATTCCAATCGGATCATCCATCGCGATATGAAGCCCCAAAATATTCTAATTGGTGCTGGATCTGTTGTCAAG
upper sequence: Vv16s0039g02400.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G50240.2 (Arabidopsis thaliana), 3'ss of exon 4
gtactttcctaagtttcctcctggaatattgctctcatttcaaatactaatcatattcaatgtttaatgttgcaatgtgcagggttataatttctatttcatacattatgttcttatatcgttttattagaatttcctgatgttgaatatttcagGTGAGAGCATTGCACTACTTGCACTCCAACCGTATCATACATCGAGATATGAAGCCACAAAATATTCTCATTGGTGCTGGTTCTATTGTTAAG
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------------------------------------------------------------------gtaacacgttttgccaa--catggctcttatttc-tatatctgattattaagacaattt--tgaaacttctttaa-------aatccagGTAAAAGCATTAGATTACTTGCATTCCAACCGTATAATTCACCGTGACATGAAGCCACAAAACATTCTTATTGGTGCTGGCTCTGTCGTTAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atacattatgttcttatatcgttttattagaatttcctgatgttgaatatttcagGTGAGAGCATTGCACTACTTGCACTCCAACCGTATCATACATCGAGATATGAAGCCACAAAATATTCTCATTGGTGCTGGTTCTATTGTTAAG
tcctgat putative branch site (score: 3)
ttatatcgttttatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactttcctaagtttcctcctggaatattgctctcatttcaaatactaatcatattcaatgtttaatgttgcaatgtgcagggttataatttctatttcatacattatgttcttatatcgttttattagaatttcctgatgttgaatatttcagGTGAGAGCATTGCACTACTTGCACTCCAACCGTATCATACATCGAGATATGAAGCCACAAAATATTCTCATTGGTGCTGGTTCTATTGTTAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC