Sequence
atgc intronic sequence ATGC exonic sequencegtaagcagcccgaacaggccctccatactacacctttgttacaaagtaccagttattgtacttatgacacattttcacattttagGTTGATGAGCGAGCAGTGTTAAAGCATTTTGATTGGCCAGAGAGCAAAACAGATGCAATAAGAGAAGCAGCTTTTGAATACCAGGATCTGATAAAGTTAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G396927_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os11g01439.1 (Oryza sativa), 3'ss of exon 5
gtaagca-gcccgaacaggccctccatactacacctttgttacaaagtaccagttattgtacttatgacacattttcacattttagGTTGATGAGCGAGCAGTGTTAAAGCATTTTGATTGGCCAGAGAGCAAAACAGATGCAATAAGAGAAGCAGCTTTTGAATACCAGGATCTGATAAAGTTAC
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gtaagcttatctattttttttctatatgcaacac----atgacaaaatagttagtactgaaaaagggtcaaata---acattttagGTCGATGAGCGGGCAGTACTAAAGCACTTTGATTGGCCAGAGAGCAAAACTGATGCACTAAGAGAGGCAGCCTTTGAGTATCAAGACCTGCTAAAATTAG
upper sequence: GRMZM2G396927_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os12g01449.1 (Oryza sativa), 3'ss of exon 5
gtaagcagcccgaacaggccctccatactacacctttgttacaaagtaccagttattgtacttatgacacattttcacattttagGTTGATGAGCGAGCAGTGTTAAAGCATTTTGATTGGCCAGAGAGCAAAACAGATGCAATAAGAGAAGCAGCTTTTGAATACCAGGATCTGATAAAGTTAC
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gtaagcttatctatttttttttcaatgcaacac----atgacaaaatagttagtactgaaaaagggtcaaata---acgttttagGTCGATGAGCGGGCAGTACTAAAGCACTTTGATTGGCCAGAGAGCAAAACTGATGCACTAAGAGAGGCAGCCTTTGAGTATCAAGACCTGCTAAAATTAG
upper sequence: GRMZM2G396927_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA20G32630.1 (Glycine max), 3'ss of exon 4
------------gtaagcagcccgaacaggccctccatactacacctttgttacaaagtaccagt-tattgtacttatgacac---attttcacattttagGTTGATGAGCGAGCAGTGTTAAAGCATTTTGATTGGCCAGAGAGCAAAACAGATGCAATAAGAGAAGCAGCTTTTGAATACCAGGATCTGATAAAGTTAC
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gctttcatgcatatgaaaaaaagggctaatttcctcct-ttgcaactttacatccaatggcttctgcattttattcatctcattttattcctttatataagGTCGATGAACAAGCTGTTCTCAAGCACTTTGATTGGCCTGAAGGGAAAACAGATGCAATGAGGGAGGCGGCTTTTGAATATCTGGATCTGATGAAATTAG
upper sequence: GRMZM2G396927_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv01s0011g02860.t01 (Vitis vinifera), 3'ss of exon 5
-------------------------------------------gtaagcagc--ccgaacaggccctccatactacacctttgttacaaagtaccagttattgta----cttatgacacattttcacattttagGTTGATGAGCGAGCAGTGTTAAAGCATTTTGATTGGCCAGAGAGCAAAACAGATGCAATAAGAGAAGCAGCTTTTGAATACCAGGATCTGATAAAGTTAC
| ||| | |||| | || || | || || | | || ||||| | || || |||| | | |||||||||| || || || | ||||| ||||||||||| || | ||| |||||||| ||||||||||||| |||||||| || || |||| || ||
gtatgcctttaaaacttcatctgttaaactggctattcttttcttttatagctgctaaacatgat-tctatgtcatggtattcctaatttg-atcatttattccaacccttttcatcaatttttttcccatcagGTTGATGAACGGGCCGTTCTCAAGCACTTTGATTGGCCTGAAGGGAAAGCAGATGCATTAAGAGAAGCAGCCTTTGAATATCAAGACTTGATGAAATTGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cacctttgttacaaagtaccagttattgtacttatgacacattttcacattttagGTTGATGAGCGAGCAGTGTTAAAGCATTTTGATTGGCCAGAGAGCAAAACAGATGCAATAAGAGAAGCAGCTTTTGAATACCAGGATCTGATAAAGTTAC
cattttc CT-rich tract
attttcacatttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagcagcccgaacaggccctccatactacacctttgttacaaagtaccagttattgtacttatgacacattttcacattttagGTTGATGAGCGAGCAGTGTTAAAGCATTTTGATTGGCCAGAGAGCAAAACAGATGCAATAAGAGAAGCAGCTTTTGAATACCAGGATCTGATAAAGTTAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT