Sequence
atgc intronic sequence ATGC exonic sequencegtacgttgattaccttcttgctctccgatgctctctccactatatatatgtacccggccgtatgcatgtttaatttgcatgagaaatctgagcgaattgttgcctgcatctcagttcttgttagggtttctgtgtgtgctgatcatgcatgcatgtctattaactgtctgttcagGAGGACGGATGGGTGGTGTGCCGCGTGTTCAAGAAGAAGTGCTTCTTCAAGATTGGCGGGGGCGAAGGGAGCACCAGCCAGAGCGCGGACGCTGGCGGCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G099144_T01 (Zea mays), 3'ss of exon 2
lower sequence: 13113.m00212 (Oryza sativa), 3'ss of exon 2
gtacgttgattaccttcttgctctccgatgctctctccactatatatatgtacccggccgtatgcatgtttaatttgcatgagaaatctgagcgaattgttgcctgcatctcagttcttgttagggtttctgtgtgtgctgatcatgca--tgcatgtctattaactgtctgtt-cagGAGGACGGATGGGTGGTGTGCCGCGTGTTCAAGAAGAAGTGCTTCTTCAAGATTGGCGGGGGCGAAGGGAGCACCAGCCAGAGCGCGGACGCTGGCGGCC
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------------------------------------------------------------------------------ttgatagtttagaatattttcccttctcctcctctcgcatcgatcgattgcattagggtttcgaactttcacctactgatcgatcgccgactcgccgcagGAGGACGGATGGGTGGTGTGCAGGGTGTTCAAGAAGAAGTGCTTCTTCAAGATCGGCGGCGGCGGCGGCGGCGAGGGGAGCGGGGGGAGCCAGGGAGGGG
upper sequence: GRMZM2G099144_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv18s0089g01120.t01 (Vitis vinifera), 3'ss of exon 2
gtacgttgattaccttcttgctctccgatgctctctccactatatatatgtacccggccgtatgcatgtttaatttgcatgagaaatctgagcgaattgttgcctgcatctcagttcttgttagggtttctgtgtgtgctgatcatgcatgcatgtctattaactgtctgttcagGAGGACGGATGGGTGGTGTGCCGCGTGTTCAAGAAGAAGTGCTTCTTCAAGATTGG---CGGGGGCGAAGGGAGCACCAGCCAGAGCGCGGACGCTGGCGGCC
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-----------------------------------------------------------gtaagt-ttcacaatatgcttaagggg---ggccataatattttccatgacgttaatctacata--gtttccaaatgggttttttactttctaacttgtat-----gtatgtgcagGAGGATGGATGGGTGGTGTGCAGGGTTTTCAAGAAGAAGAACCTATTCAAGCTTGGAACCGAAGGCGGAGGAAGCAGCAGCGCCAGCATGGCCGGCTTAG--- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttagggtttctgtgtgtgctgatcatgcatgcatgtctattaactgtctgttcagGAGGACGGATGGGTGGTGTGCCGCGTGTTCAAGAAGAAGTGCTTCTTCAAGATTGGCGGGGGCGAAGGGAGCACCAGCCAGAGCGCGGACGCTGGCGGCC
tattaac putative branch site (score: 1)
tctgttc putative PPT
tctattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgttgattaccttcttgctctccgatgctctctccactatatatatgtacccggccgtatgcatgtttaatttgcatgagaaatctgagcgaattgttgcctgcatctcagttcttgttagggtttctgtgtgtgctgatcatgcatgcatgtctattaactgtctgttcagGAGGACGGATGGGTGGTGTGCCGCGTGTTCAAGAAGAAGTGCTTCTTCAAGATTGGCGGGGGCGAAGGGAGCACCAGCCAGAGCGCGGACGCTGGCGGCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA