Sequence
atgc intronic sequence ATGC exonic sequencegttggttctcagtcttgtgctttggtagattccgacattctcataataataaatagtttttcatatgttcttagaattgatcctgccattactcttttgcagGTACAGTTGCAGCACAAGATAAAACAAGAAGCAGAACAATTTCGACAATGGAAGGCCTCTCGTGAGAAGGAACTGCTTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g00130.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: LOC_Os09g02650.1 (Oryza sativa), 3'ss of exon 15
gttggttctcagtcttgtgctttggtagattccgacattctcataataataaatagtttttcatatgttcttagaattgatcctgccattactcttttgcagGTACAGTTGCAGCACAAGATAAAACAAGAAGCAGAACAATTTCGACAATGGAAGGCCTCTCGTGAGAAGGAACTGCTTCAG
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gttg-tcttccctttctcatcatgtcaagttctaatg----catcacattttaca--ctatcgtaagtcataacaattttgccaaccttgttccattatcagGTTCAACTACAACATAAAATCAAACAAGAAGCGGAACAATTCCGGCAATGGAAGGCTACCCGTGAAAAGGAACTCCTGCAG
upper sequence: Vv07s0031g00130.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA05G15750.1 (Glycine max), 3'ss of exon 16
gttggttctcagtcttgtgctttggtagattccgacattctcataataataaatagtttttcatatgttcttagaattgatcctgccattac-tcttttgcagGTACAGTTGCAGCACAAGATAAAACAAGAAGCAGAACAATTTCGACAATGGAAGGCCTCTCGTGAGAAGGAACTGCTTCAG
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------------------------------------------------------------------------------------gtatttatgtacattgcaggttcagttgcagCATAAAATGAAGCAAGAAGCAGAACAATTTCGACAATGGAAGGCTTCTCGTGAGAAAGAGCTACTCCAG
upper sequence: Vv07s0031g00130.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA17G18540.1 (Glycine max), 3'ss of exon 11
gttggttctcagtcttgtgctttggtagattccgac-attctcataataataaatagtttttcatatgttcttagaattgatcctgccattactctt--ttgcagGTACAGTTGCAGCACAAGATAAAACAAGAAGCAGAACAATTTCGACAATGGAAGGCCTCTCGTGAGAAGGAACTGCTTCAG
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-----------------------gccagtttccatttgttgagctgattaattataagattttttttcttcgtag--ctgacagttgtatttatgtacattgcagGTTCAGTTGCAGCATAAAATGAAGCAAGAGGCAGAACAATTTCGACAATGGAAGGCTTCTCGTGAGAAGGAGCTACTCCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aataaatagtttttcatatgttcttagaattgatcctgccattactcttttgcagGTACAGTTGCAGCACAAGATAAAACAAGAAGCAGAACAATTTCGACAATGGAAGGCCTCTCGTGAGAAGGAACTGCTTCAG
aattgat putative branch site (score: 4)
ttactctttt putative PPT
atagtttttcatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttggttctcagtcttgtgctttggtagattccgacattctcataataataaatagtttttcatatgttcttagaattgatcctgccattactcttttgcagGTACAGTTGCAGCACAAGATAAAACAAGAAGCAGAACAATTTCGACAATGGAAGGCCTCTCGTGAGAAGGAACTGCTTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA