Sequence
atgc intronic sequence ATGC exonic sequencegtatcttatgtttatcgcactgccttgtagtatggcagtacttggtttatttttgcatacactaatctcatgataccttcttgtggatcagGAATTCAAGGACACCTTAAAATACATTGAGAGTATACGGTCTACAGCAGAACCATATGGAATTTGTCGTATTGTCCCGCCGCCTTCATGGAAACCTCCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G140524_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os05g10770.1 (Oryza sativa), 3'ss of exon 4
------------gtatcttatgtt-tatcgcactgcctt--gtagtatggcagtacttggtttatttttgcatacactaatctcatgataccttcttgtggatcagGAATTCAAGGACACCTTAAAATACATTGAGAGTATACGGTCTACAGCAGAACCATATGGAATTTGTCGTATTGTCCCGCCGCCTTCATGGAAACCTCCAT
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gtacctttccccttgctaactgttgtactgtattgtatttagtactgtgatctttctgtatttatcgtcatatccccagattt-gtgatattgtctcatggatcagGAATTTGAAGACACTCTAAAATACATTGAGAGTATACGGCCAATGGCGGAACCATATGGTATTTGCCGTATTGTCCCACCATCTTCTTGGAAGCCTCCAT
upper sequence: GRMZM2G140524_T02 (Zea mays), 3'ss of exon 4
lower sequence: Vv14s0036g00570.t01 (Vitis vinifera), 3'ss of exon 6
------------------------------------------------------------gtatcttatgttta-tcgcactgccttgtagtatggcagtacttggtttatttttgcatacactaatctcatgataccttcttgtggatcagGAATTCAAGGACACCTTAAAATACATTGAGAGTATACGGTCTACAGCAGAACCATATGGAATTTGTCGTATTGTCCCGCCGCCTTCATGGAAACCTCCAT
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gtttgtattgtcacttggaatattcaaggcttccaatttaaaatattttcctctattcttgtttctttcattttctcatttgggttttttctattggcaaaatttataatttttttctgaaagcaagtttataactcattta-------cagGAGTTTGAAGACACTTTAAAATACATAGCAAGCATACGATCAAGAGCAGAACCATATGGAATTTGCCGAATTGTTCCTCCATCCTCTTGGAAGCCTCCCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtacttggtttatttttgcatacactaatctcatgataccttcttgtggatcagGAATTCAAGGACACCTTAAAATACATTGAGAGTATACGGTCTACAGCAGAACCATATGGAATTTGTCGTATTGTCCCGCCGCCTTCATGGAAACCTCCAT
cactaat putative branch site (score: 2)
taccttctt putative PPT
tttatttttgcata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatcttatgtttatcgcactgccttgtagtatggcagtacttggtttatttttgcatacactaatctcatgataccttcttgtggatcagGAATTCAAGGACACCTTAAAATACATTGAGAGTATACGGTCTACAGCAGAACCATATGGAATTTGTCGTATTGTCCCGCCGCCTTCATGGAAACCTCCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA