Sequence
atgc intronic sequence ATGC exonic sequencegtatggattccacctctcttctaccatttacatttttcctcatcatcttgtactaagtggttggcttctatcctttcagATGGAAATGGGTTCAAGACAAGCACAATGAGACTTGGAGCGGATGTGATTGTATTCAGCCGCCACTTGAAAGAGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0066g00870.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os06g28060.1 (Oryza sativa), 3'ss of exon 7
gtatggattcc--acctctcttctaccatttacatttttcctcatcatcttgtactaagtggttggcttctatcctttcagATGGAAATGGGTTCAAGACAAGCACAATGAGACTTGGAGCGGATGTGATTGTATTCAGCCGCCACTTGAAAGAGAG
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gtaagagttctgaacagtgcctttggcccctgtctattgcttaatacttcagaacctgatttgcaagttcaccactactagATGGAAATGGGTTCAAAACCAGCACAATGAGACTTGGAGCAGATGTTATTGTATTCAGCTGCACACAAGATAATAG
upper sequence: Vv14s0066g00870.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os01g36840.3 (Oryza sativa), 3'ss of exon 5
gtatggattc-cacctctcttctaccattt------acatttttcctcatcatcttgtact--aagtggttggcttctatcctttcagATGGAAATGGGTTCAAGACAAGCACAATGAGACTTGGAGCGGATGTGATTGTATTCAGCCGCCACTTGAAAGAGAG
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gtatagccttgtgtactttttctgcagttctttggaaaattgatatctagaacccttcttttggatttactgctgtttgttgtatcagATGGAAATGGATTCAAAACTAGCACAATGAGGCTTGGAGCAGATGTGATTGTTTTTACACAAAACCAAAATAACTG
upper sequence: Vv14s0066g00870.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os11g26830.1 (Oryza sativa), 3'ss of exon 5
---------------gtatggattccacctctcttctac--catttacatttttcctcatcatcttgtactaagtggttggcttctatcctttcagATGGAAATGGGTTCAAGACAAGCACAATGAGACTTGGAGCGGATGTGATTGTATTCAGCCGCCACTTGAAAGAGAG
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gtatgtactactatatcatatattcaggtttttatcctctccaaacttaacttatattgttatcttgtat--attgacattcgttgatctgaccagATGGAAATGGGTTCAAGACTGGCACAATGCGGCTAGGGGCAGATGTAATTGTTTTCAGTCGCTGCATGAAGAGCAG
upper sequence: Vv14s0066g00870.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G372477_T01 (Zea mays), 3'ss of exon 6
--------------gtatggattccacctctcttctaccatttaca---tttttcctcatcatcttgtactaagtggttggcttctatccttt----cagATGGAAATGGGTTCAAGACAAGCACAATGAGACTTGGAGCGGATGTGATTGTATTCAGCCGCCACTTGAAAGAGAG
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tcttcgattggacaatgtattgccaacttttgttctataatcagcaagtcatatcctgaaacccattgtctaacgttttggcatttatcactttgatcagATGGAAATGGTTTTAAGACTAGCACAATGCGGCTTGGGGCAGATGTTATTGTTTTCAGTCGCTGCACTAAGAGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catttacatttttcctcatcatcttgtactaagtggttggcttctatcctttcagATGGAAATGGGTTCAAGACAAGCACAATGAGACTTGGAGCGGATGTGATTGTATTCAGCCGCCACTTGAAAGAGAG
cttctatcctttc CT-rich tract
acattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatggattccacctctcttctaccatttacatttttcctcatcatcttgtactaagtggttggcttctatcctttcagATGGAAATGGGTTCAAGACAAGCACAATGAGACTTGGAGCGGATGTGATTGTATTCAGCCGCCACTTGAAAGAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA