Sequence
atgc intronic sequence ATGC exonic sequenceAGAGCAACAAGTACAAGGTGTCTTGAACCTGATTGATCTTGCGGGTAGTGAGCGTTTGTCAAAGAGCGGATCAACTGGCGATAGACTGAAAGAAACTCAAgtaatgtctgcgaatcttagtaaacacatttttagagacacaagagatttaatattggcttaatgattttcttcttcttactgaaag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G27180.1 |
intron # | 15 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G27180.1 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: GLYMA06G41600.1 (Glycine max), 5'ss of exon 14
AGAGCAACAAGTACAAGGTGTCTTGAACCTGATTGATCTTGCGGGTAGTGAGCGTTTGTCAAAGAGCGGATCAACTGGCGATAGACTGAAAGAAACTCAAgtaatgtctgcgaatcttagtaaacacatttttagagacacaagagatttaatattggcttaatgattttcttcttcttactgaaag
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TGACCAACAAGTACAAGGTGTTCTGAACCTTATTGATCTTGCTGGTAGCGAGCGGCTTTCAAAGAGTGGATCAACTGGGGACCGGTTGAAAGAAACTCAAgta-tgtataagcatggcgcttttcattctctcttattcttatttgatttcaaatagtttaaactctctttcgtttgtgatcag---
upper sequence: AT4G27180.1 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: GLYMA12G16580.1 (Glycine max), 5'ss of exon 15
AGAGCAACAAGTACAAGGTGTCTTGAACCTGATTGATCTTGCGGGTAGTGAGCGTTTGTCAAAGAGCGGATCAACTGGCGATAGACTGAAAGAAACTCAAgtaatgtctgcgaa-tcttagtaaacacatttttag--agacacaagagatttaatattggcttaatgattttcttcttcttactgaaag
|| ||||||||||||||||| ||||||| |||||||| || ||||| ||||| | |||||||| |||||||| || || | ||||||||||||||||| ||| || || | || ||| | | | | ||||| | || | | || | || | | ||
TGACCAACAAGTACAAGGTGTTCTGAACCTCATTGATCTAGCTGGTAGCGAGCGGCTTTCAAAGAGTGGATCAACCGGGGACCGGTTGAAAGAAACTCAAgta-----tgcaaagtcgtggtgcttttattctcacttgtgcttatttgatttcacatagtttaaactctctttcatctgtaaccag---
upper sequence: AT4G27180.1 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: GLYMA12G34330.1 (Glycine max), 5'ss of exon 14
AGAGCAACAAGTACAAGGTGTCTTGAACCTGATTGATCTTGCGGGTAGTGAGCGTTTGTCAAAGAGCGGATCAACTGGCGATAGACTGAAAGAAACTCAAgtaatgtctgcgaatcttagtaaacacatttttagagacacaagagatttaatattggcttaatgattttcttcttcttactgaaag---
|| ||||||| ||||||| | | || || ||||||||||| || ||||||||| | |||| |||||| |||||||| || || |||||||||| |||||| ||| || | | | ||| | | | | | || || ||||| ||||| |||||
TGACCAACAAGCACAAGGTATTCTAAATCTCATTGATCTTGCTGGGAGTGAGCGTCTTTCAAGGAGCGGGTCAACTGGGGACCGATTGAAAGAAACCCAAgta-tgta---aaaccctgatgtttcttatttcacatagttatgcttatttgagttctattaatctaaactttctttcatttgaaattag
upper sequence: AT4G27180.1 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: Vv19s0014g05070.t01 (Vitis vinifera), 5'ss of exon 14
AGAGCAACAAGTACAAGGTGTCTTGAACCTGATTGATCTTGCGGGTAGTGAGCGTTTGTCAAAGAGCGGATCAACTGGCGATAGACTGAAAGAAACTCAAgtaatgtctgcgaatcttagtaaacacatttttagagac---acaagagatttaatattggcttaatgattt-tcttcttcttactgaaag---
|| ||||||||||||||||| |||||||| |||||||||||||| ||||| || | || ||||| |||||||| || || | |||||||||| |||||| | | || | | || | | || ||| || || | || | | ||||| | | | |
TGAACAACAAGTACAAGGTGTTTTGAACCTTATTGATCTTGCGGGCAGTGAACGACTTTCTAAGAGTGGATCAACAGGGGACCGTTTGAAAGAAACCCAAgtatttgagaaacactgatacaagcttaattctgttaattttacttatcattatgcatctttatatttatatatattcttttcaattatgacagMapped 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|116407359|gb|EG449951.1|EG449951EST: AGCGTTTGTCAAAGAGCGGATCAACTGGCGATAGACTGAAAGAAACTCAA GCAATCAACAAAAGCTTATCGTCTTTAGGGGATGTCATATTTGCCTTAGCG
genomic: AGCGTTTGTCAAAGAGCGGATCAACTGGCGATAGACTGAAAGAAACTCAAgtaatgtctg ... ttactgaaagGCAATCAACAAAAGCTTATCGTCTCTAGGCGATGTCATATTTGCCTTAGCG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGAGCAACAAGTACAAGGTGTCTTGAACCTGATTGATCTTGCGGGTAGTGAGCGTTTGTCAAAGAGCGGATCAACTGGCGATAGACTGAAAGAAACTCAAgtaatgtctgcgaatcttagtaaacacatttttagagacacaagagatttaatattggcttaatgattttcttcttcttactgaaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA