Sequence
atgc intronic sequence ATGC exonic sequence...atcccttcccccctctttttttctctttcttgctaaatatgaattcaggtttgctttattagttgagtccatttcattgaggttgtactgcaaattttagCAGGGGATTCCAGGGAAATGGATGAAGAAGCAGCAAAAGAATGGGAACATACACTGCTGCAAAATACAATGGACAAAGAGTTGAATGAGCTAAACAAACG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g10090.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os09g02650.1 (Oryza sativa), 3'ss of exon 11
--------------------------------------------------------atcccttcccccctctttttttctcttt---cttgctaaa-tatgaattcaggtttgctttat-tagttgagtccatttcattgaggttgtactgcaaattttagCAGGGGATTCCAGGGAAATGGATGAAGAAGCAGCAAAAGAATGGGAACATACACTGCTGCAAAATACAATGGACAAAGAGTTGAATGAGCTAAACAAACG
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gtaatctattagcaccttcattatttcatctcgttggcattcagaaattttattcagtcccatcttaagccatgactaagcagtgaacatggtggactactattttcattttatttttccttgataatttccttattctgcgataattctg-gacctccagCAGGCAGCCCTAAAGATATTGATGATGAAGTGGCCAAAGAATGGGAACACACAATGCTGCAGGATAGCATGGGCAAAGAGTTGAATGAATTAAACAGACA
upper sequence: Vv18s0001g10090.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA17G35780.1 (Glycine max), 3'ss of exon 11
------atcccttcccccctctttttt------tctctttcttgctaaatatgaa-ttcaggtttgctttattagttgag----tccatttcattgaggttgtactgcaaattttagCAGGGGATTCCAGGGAAATGGATGAAGAAGCAGCAAAAGAATGGGAACATACACTGCTGCAAAATACAATGGACAAAGAGTTGAATGAGCTAAACAAACG---
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gtcagcatcttctttggccttgatttaataatatgttataattgccaattttaaagctgcaacttgcttcaacatgttagaacttctatgattttgggttacaattgccaattttagCAGGGGATTCAAGGGAAAT---TGAAGAAGTAGAAAAAGAGTGGGAGCATACTCTTCTGCAAAATAGTATGGACAGAGAGTTACATGAATTGAATAAACGCTT
upper sequence: Vv18s0001g10090.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA14G09390.1 (Glycine max), 3'ss of exon 11
----------------------------------------------------------atcccttcccccctctttttttctctttcttgctaa-atatgaattcaggtttgctttattagttgagtccatttcattg-aggttgta-ctgcaaattttagCAGGGGATTCCAGGGAAATGGATGAAGAAGCAGCAAAAGAATGGGAACATACACTGCTGCAAAATACAATGGACAAAGAGTTGAATGAGCTAAACAAACG---
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gtcagcatcttctttggcctgaatttaataatctgttattattgccaattttaaagcagcaacttgcttcaacttgttctgtaccactgtctactgcttaaatttaatcaagtgagactattataacttctatgattatgggttacaattgccgatttaagCAGGGGATTCAAGGGAAAT---TGAAGAAGTAGAAAAAGAGTGGGAGCATACTCTTCTGCAAAATAGTATGGATAGAGAGTTACATGAATTGAATAAACGCTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caggtttgctttattagttgagtccatttcattgaggttgtactgcaaattttagCAGGGGATTCCAGGGAAATGGATGAAGAAGCAGCAAAAGAATGGGAACATACACTGCTGCAAAATACAATGGACAAAGAGTTGAATGAGCTAAACAAACG
tttattagtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atcccttcccccctctttttttctctttcttgctaaatatgaattcaggtttgctttattagttgagtccatttcattgaggttgtactgcaaattttagCAGGGGATTCCAGGGAAATGGATGAAGAAGCAGCAAAAGAATGGGAACATACACTGCTGCAAAATACAATGGACAAAGAGTTGAATGAGCTAAACAAACG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- cccttcc
- - - - - ccctctt
- - - - - - - - - - - - - ttcttgc
- - - - - - - - - - - - - - - - - aaatatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccatttc