Sequence
atgc intronic sequence ATGC exonic sequenceGATTGGCTGGATTGTCAACTGCAAAGTACCTGGCTGATGCAGGCCACAAACCTCTGTTGCTTGAAGCAAGAGATGTTCTTGGTGGAAAGgtactttgattggtctcactttccgaattacttattgttgtttgcatttctcattcttatatgatttgctgattcccaaaggctgtaccaattatgtttg...
Basic information
species | Arabidopsis thaliana |
transcript | AT4G14210.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G14210.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G410515_T01 (Zea mays), 5'ss of exon 4
GATTGGCTGGATTGTCAACTGCAAAGTACCTGGCTGATGCAGGCCACAAACCTCTGTTGCTTGAAGCAAGAGATGTTCTTGGTGGAAAGgtactttgattggtctcactttccgaattacttattgttgtttgcatt--tctcattc-----ttatatgatttgctgattcccaaaggctgtaccaattatgtttg
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GATTGGCTGGTCTATCAACAGCGAAGTATCTGGCAGATGCTGGACATAAACCCATATTGCTTGAGGCAAGAGATGTTTTGGGTGGAAAGgt---ctgataaat---acttgcatgactgtttactactctctgaattgctctcattcactgttttcagcatttgttattttatgattttttatgcattgatag---
upper sequence: AT4G14210.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA11G36810.1 (Glycine max), 5'ss of exon 3
GATTGGCTGGATTGTCAACTGCAAAGTACCTGGCTGATGCAGGCCACAAACCTCTGTTGCTTGAAGCAAGAGATGTTCTTGGTGGAAAGgtactttgattggtctcactttccgaattactta-ttgttg-tttgcatttctcattcttatatgatttgctgattcccaaaggctgtaccaattatgtttg
|||||||||| || ||||||||||| || |||||||||| || || |||||| | ||||| ||||||||||| ||||| ||||||||||| | | | | | | | | ||| |||| |||| | | | || || || || | || | || || | ||||
GATTGGCTGGTTTATCAACTGCAAAATATTTGGCTGATGCTGGGCATAAACCTATATTGCTGGAAGCAAGAGACGTTCTAGGTGGAAAGgttttcctgctaatttaatctcttacgtcaattagttgtcactttgtgtgcattctgctcattattttagcatgctgtttaatgaaataagaaatttgtt--
upper sequence: AT4G14210.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA18G00720.1 (Glycine max), 5'ss of exon 3
GATTGGCTGGATTGTCAACTGCAAAGTACCTGGCTGATGCAGGCCACAAACCTCTGTTGCTTGAAGCAAGAGATGTTCTTGGTGGAAAGgtactttgattggtctca-ctttccgaattacttattgttgttt-gcatttctcattcttatatgatttgctgattcccaaaggctgtaccaattatgtttg
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GATTGGCTGGTTTATCAACTGCAAAATATTTGGCTGATGCTGGGCATAAACCTATATTGCTGGAAGCAAGAGACGTTCTAGGTGGAAAGgttttcctgctaatttaatccctttcggcaataagttgtcacttagtgcgccttcttttcattattttaacaagctgtttaatgaaataagaaatttgtt--
upper sequence: AT4G14210.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv09s0002g00100.t01 (Vitis vinifera), 5'ss of exon 4
GATTGGCTGGATTGTCAACTGCAAAGTACCTGGCTGATGCAGGCCACAAACCTCTGTTGCTTGAAGCAAGAGATGTTCTTGGTGGAAAGgtactttgattggtctcacttt-----ccgaattacttattgttgtttgcatttctcattcttatatgatttgctgattcccaaaggctgtaccaattatgtttg
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GTTTGGCTGGTTTGTCTACTGCAAAATATTTGGCAGATGCAGGTCACAAGCCTATATTGTTGGAAGCAAGAGATGTTTTAGGTGGAAAGgtttatgagatgctctatttttgcccctctttttaatttttagtcattaaacttctcttgcttattctgtcatataaaattcaaactttct-ccccttatt----Mapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|116473796|gb|EG516388.1|EG516388EST: CAGGCCACAAACCTCTGTTGCTTGAAGCAAGAGATGTTCTTGGTGGAAAG ATAGCTGCATGGAAGGATGAAGATGGGGACTGGTATGAGACTGGTTTACAT
genomic: CAGGCCACAAACCTCTGTTGCTTGAAGCAAGAGATGTTCTTGGTGGAAAGgtactttgat ... cttcctccagATAGCTGCATGGAAGGATGAAGATGGGGACTGGTATGAGACTGGTTTACAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GATTGGCTGGATTGTCAACTGCAAAGTACCTGGCTGATGCAGGCCACAAACCTCTGTTGCTTGAAGCAAGAGATGTTCTTGGTGGAAAGgtactttgattggtctcactttccgaattacttattgttgtttgcatttctcattcttatatgatttgctgattcccaaaggctgtaccaattatgtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cactttcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tctcattc