Sequence
atgc intronic sequence ATGC exonic sequencegttggccttagttgatgtgctgcgcgcatcagcgcatgcatgcgtacatgctcaggatctcgcaacgtcgttcctagcttgatcgatcgtcctgatgcgtgcgtgtgtctaaatggatctatctgcagGCACAGATGGACCGGGCGGTACGAGGCTCACCTGTGGGACAACACTTGCAGGAAGGAAGGCCAGACTAGGAAAGGGAGGCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G399072_T02 (Zea mays), 3'ss of exon 2
lower sequence: PP1S131_131V6.1 (Physcomitrella patens), 3'ss of exon 2
gttggccttagttgatgtgctgcgcgcatcagcgcatgcatgcgtacatgctcaggatctcgcaacgtcgttcctagct-tgatcgatcgtcctgatgcgtgcgtgtgtctaaatggatctatctgcagGCACAGATGGACCGGGCGGTACGAGGCTCACCTGTGGGACAACACTTGCAGGAAGGAAGGCCAGACTAGGAAAGGGAGGCAAG
| | | || | | ||| | | | || ||| | || | | |||| | | |||| | | | || || ||||| | ||||| || ||||||||||| || ||||||||||| ||||| || |||||||| || ||| | ||||| | ||||
-----------------------------gggtgtagagctgaatttaggcttggcgaaggtcgaagtggttgagggtcatgtcctggtctgaggatgttggggggtgtattgtgtgtttgatttgtagGCATCGTTGGACTGGACGGTACGAGGCACATCTGTGGGACAATACTTGTAGAAAGGAAGGTCAAACTCGCAAAGGTCGACAAG
upper sequence: GRMZM2G399072_T02 (Zea mays), 3'ss of exon 2
lower sequence: PP1S131_139V6.1 (Physcomitrella patens), 3'ss of exon 1
gttggccttagttgatgtgctgcgcgcatcagcgcatgcatgcgtacatgctcaggatctcgcaacgtcgttcctagcttgatcgatcgtcctgatgcgtgcgtgtgtctaa-atggatctatctgcagGCACAGATGGACCGGGCGGTACGAGGCTCACCTGTGGGACAACACTTGCAGGAAGGAAGGCCAGACTAGGAAAGGGAGGCAAG
||||| || || | || | || | | || | || ||| | ||| | ||| || | | || || || | || || ||||| | ||||| || |||||||||||||| ||||||||||| ||||| || |||||||| || ||| | ||||| | ||||
----------------------ggcgcag-agagc-taaattttagcctggcgaaggtc----gaagttgttgagggtcatatcc-tggtctgaggatgttggggggtgtattgtgtgttgatttgtagGCATCGTTGGACTGGACGGTACGAGGCTCATCTGTGGGACAATACTTGTAGAAAGGAAGGTCAAACTCGCAAAGGTCGACAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctagcttgatcgatcgtcctgatgcgtgcgtgtgtctaaatggatctatctgcagGCACAGATGGACCGGGCGGTACGAGGCTCACCTGTGGGACAACACTTGCAGGAAGGAAGGCCAGACTAGGAAAGGGAGGCAAG
gtctaaa putative branch site (score: 3)
tctatct putative PPT
tctaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttggccttagttgatgtgctgcgcgcatcagcgcatgcatgcgtacatgctcaggatctcgcaacgtcgttcctagcttgatcgatcgtcctgatgcgtgcgtgtgtctaaatggatctatctgcagGCACAGATGGACCGGGCGGTACGAGGCTCACCTGTGGGACAACACTTGCAGGAAGGAAGGCCAGACTAGGAAAGGGAGGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA