Sequence
atgc intronic sequence ATGC exonic sequencegtaagtcttggctatttttcggacttgcatgcaagttttacgacattcgttatgtccttttccctcgtgaaataattttggccatataatttgttgtgctatcccttcatcatcagATATGGCGAAGGATGGAACTTTGGTGAAGTTGCTGAAAATGGACGTGGAATAAATGCGTCACAGTTCAATTTAGGCGGGACAGGAATTGGAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G04360.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G04360.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GRMZM2G158043_T01 (Zea mays), 3'ss of exon 15
gtaagtcttggctatttttcggacttgcatgcaagttttacgacattcgttatgtccttttccctcgtgaaataattttggccatataatttgttgtgctatcc-cttcatcatcagATATGGCGAAGGATGGAACTTTGGTGAAGTTGCTGAAAATGGACGTGGAATAAATGCGTCACAGTTCAATTTAGGCGGGACAGGAATTGGAAG
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---------------------gtaaggactgagattcctgacagagcaatcagttttaatggtattggcacacagtttccatgttttcaactgttaagacatttacatcgtta-cagGTATGGTGAAGGATGGAACTTCGGTGAAGTTGCGGAAAATCAACGTGGGATAAATGGATCCCAGCTAAATATGAGTGGCACTGGGATTGGTAG
upper sequence: AT5G04360.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA10G34080.1 (Glycine max), 3'ss of exon 15
----------gtaagtcttggctatttt---tcggacttgcatgcaagtttt-------acgacattcgttatgtcctt-ttccctcgtgaaata-attttggccatataatttgttgtg----ctatcccttcatcatc------agATATGGCGAAGGATGGAACTTTGGTGAAGTTGCTGAAAATGGACGTGGAATAAATGCGTCACAGTTCAATTTAGGCGGGACAGGAATTGGAAG
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gtacttgttccccaatgttggtttttatgaattagattcattggtgaatttctttgttaacttcattcatcttgctttcactcatttgcatgttatattttagcctcatattctctctttaaccttgtttttttttaattgaaaaaagATATGGTGAAGGATGGGACTTTGGTGAAGTTGCCAAAAATGGCCGTGGGGTAAATGCTTCTCAGTTCAATCTCCCAGGAACACAAATTGGGAG
upper sequence: AT5G04360.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: Vv13s0019g05160.t01 (Vitis vinifera), 3'ss of exon 15
gtaagtcttggctatttttcggacttgcatgcaagttttacgacattcgttatgtccttttccctcgtgaaataattttggccatataatttgttgtgctatcccttcatcatcagATATGGCGAAGGATGGAACTTTGGTGAAGTTGCTGAAAATGGACGTGGAATAAATGCGTCACAGTTCAATTTAGGCGGGACAGGAATTGGAAG
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gtgagtgtggacttatt-----aagtgcaattt--ttttgccttaagctttttatgttgtatcattaaggtatgaatttatttgtctccattactcttgtttctgtttat----agATATGGTGAAGGATGGGACTTTGGTGAAGTTGCAAAAAATGGACGTGGAGTAAATGCATCACAGTTCAATCTTTGTGGAACTGGTATTGGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccctcgtgaaataattttggccatataatttgttgtgctatcccttcatcatcagATATGGCGAAGGATGGAACTTTGGTGAAGTTGCTGAAAATGGACGTGGAATAAATGCGTCACAGTTCAATTTAGGCGGGACAGGAATTGGAAG
ctatcccttc CT-rich tract
atataatttgttgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtcttggctatttttcggacttgcatgcaagttttacgacattcgttatgtccttttccctcgtgaaataattttggccatataatttgttgtgctatcccttcatcatcagATATGGCGAAGGATGGAACTTTGGTGAAGTTGCTGAAAATGGACGTGGAATAAATGCGTCACAGTTCAATTTAGGCGGGACAGGAATTGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG