Sequence
atgc intronic sequence ATGC exonic sequence...tataagctgtgtgtcctcatgttctaagcctatatagcctttgtttcacttttactctaattagatattttgtcttactgaagcatatcactaatttcagGTCCATTTTCGGCGTATAATTGCTCCGCATACTGACATCAACTTAGGGGACTGTTCTTTTCTAGATACTTGCCGTCATATGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g02400.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os02g45110.1 (Oryza sativa), 3'ss of exon 2
-tataagctgtgtgtcctcatgttctaagcctatatagcctttgtttcacttttactctaattagatattttgtcttactgaagcatat--cactaatttcagGTCCATTTTCGGCGTATAATTGCTCCGCATACTGACATCAACTTAGGGGACTGTTCTTTTCTAGATACTTGCCGTCATATGAAG
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tttttccttgaatacttgaatagcttttgt-tatctggtcttttagctg--ttcatggtaacaactaatctggaagtaactgtttatatttcattctgagcagGTCCATTTCCGCCGTATTATTGCTCCTCATACTGATACAAACCTAGGAGATTGTTCTTTTCTCGACACTTGCCGTCACACAAAG
upper sequence: Vv02s0025g02400.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA16G03690.1 (Glycine max), 3'ss of exon 3
------------------------------------------------------------------------------tat-aagctgtgtgtcctcatgttctaagcctatatagcctttgtt--tcacttttac----tctaattagatattttgtcttac-tgaagcatatcactaatttcagGTCCATTTTCGGCGTATAATTGCTCCGCATACTGACATCAACTTAGGGGACTGTTCTTTTCTAGATACTTGCCGTCATATGAAG
||| | |||| | | | || ||| || || |||| | | ||||| |||| | | | ||| | | | | || || || ||||| |||||| | | || |||||||| |||||||||||||| ||||| || ||||||||||| ||||||||||| || ||||||
gttagtgacaaggacagtattatactgtttttttatttcttggatttcataactctttcaatctctgtttgtttaaactattatgctgattatgtggtttttttaatggaatttaaccttgaatattggtatttacattttctattagtctttcttgacatgcattaatgatcctttcctttgcagGTTCATTTTAGAAGGATCATTGCTCCTCATACTGACATCAATTTAGGAGATTGTTCTTTTCTTGATACTTGCCGACACATGAAG
upper sequence: Vv02s0025g02400.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA07G07300.1 (Glycine max), 3'ss of exon 3
----------------------------------------------------------------------------------------tataagctgtgtgtcctcatgttctaagcctatatagcctttgtttcacttttactctaattagatattttgtcttactgaagcatatcactaattt-cagGTCCATTTTCGGCGTATAATTGCTCCGCATACTGACATCAACTTAGGGGACTGTTCTTTTCTAGATACTTGCCGTCATATGAAG
| |||| || | ||| | | | || | | || || ||| |||| | | | ||| | | | | | | | || ||||| |||||| | || || ||||| || |||||||||||||| ||||| || ||||||||||| ||||| ||||| || ||||||
gttagttacaaggacagtattatgctgttttcccatctcttgtgtttcattgctaactcttgcaatgtctgttggtttaaatactatgctgataatgtggttctttatggaatcaaaccatgaatattggtgtttacattt--tctattagtctttcttggcatgcattaatgttcctttccttggcagGTTCATTTTAGACGGATCATTGCACCTCATACTGACATCAATTTAGGAGATTGTTCTTTTCTTGATACCTGCCGACACATGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcacttttactctaattagatattttgtcttactgaagcatatcactaatttcagGTCCATTTTCGGCGTATAATTGCTCCGCATACTGACATCAACTTAGGGGACTGTTCTTTTCTAGATACTTGCCGTCATATGAAG
cactaat putative branch site (score: 2)
tttactctaattagat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tataagctgtgtgtcctcatgttctaagcctatatagcctttgtttcacttttactctaattagatattttgtcttactgaagcatatcactaatttcagGTCCATTTTCGGCGTATAATTGCTCCGCATACTGACATCAACTTAGGGGACTGTTCTTTTCTAGATACTTGCCGTCATATGAAG
- - - -tgtgtgt
- - - - - - - cctcatg
- - - - - - - - - - - -ctaagcc
- - - - - - - - - - - - - - - - - - gcctttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgaagca