Sequence
atgc intronic sequence ATGC exonic sequence...ccttatcccagtagcacttaggtgagtttgtgtgtatgaaagatgtcaaagcattgctgttttatattaatagtaatgaggtacctttgtcaccatgcagTTGATATGATAAAGCTGGGCGCCACTGTGATTCTGCACAAAGCAAAGATTGACATGTTTAAGGGATCAATGAGGCTAGCAGTTGACAAATGGGGACGTGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0072g00020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os06g01370.1 (Oryza sativa), 3'ss of exon 1
---ccttatcccagtagcacttaggtgagtttgtgtgtatgaaagatgtcaaagcattgctgttttatattaatagtaatgaggtacctttgtcaccatgcagTTGATATGATAAAGCTGGGCGCCACTGTGATTCTGCACAAAGCAAAGATTGACATGTTTAAGGGATCAATGAGGCTAGCAGTTGACAAATGGGGACGTGT
|||| | | | | | ||| | ||| |||| ||| | | || | || | | || | ||| || ||||||| || | |||| ||| |||| || || | | ||| || |||||||||||||| ||||| | |||||||| ||||||||||||||||| || |
gtcacttactatcattataatcacttcgcttttt-tgttcaaaagctgt-ggtgtgtgtctcatccatctaagtaagccctatccttttttcgtgtca-acagTTGACTTGGTGAAGCCAGGCACCACGGTCATCTTCCGCAATGCCAAGATTGACATGTTCAAGGGGACCATGAGGCTGGCAGTTGACAAATGGGGCCGGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaaagcattgctgttttatattaatagtaatgaggtacctttgtcaccatgcagTTGATATGATAAAGCTGGGCGCCACTGTGATTCTGCACAAAGCAAAGATTGACATGTTTAAGGGATCAATGAGGCTAGCAGTTGACAAATGGGGACGTGT
tattaat putative branch site (score: 2)
cctttgtc putative PPT
tgttttatattaatag 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccttatcccagtagcacttaggtgagtttgtgtgtatgaaagatgtcaaagcattgctgttttatattaatagtaatgaggtacctttgtcaccatgcagTTGATATGATAAAGCTGGGCGCCACTGTGATTCTGCACAAAGCAAAGATTGACATGTTTAAGGGATCAATGAGGCTAGCAGTTGACAAATGGGGACGTGT
- - - cccagta
- - - - - - - - - - - - - - - -gtgtatg
- - - - - - - - - - - - - - - - - - - - - - - caaagca