Sequence
atgc intronic sequence ATGC exonic sequenceGTGGAGTGCGATAAGAGTACAATCATCAAACGTGCTTCTGTTCCCGCTAGGGATTTGAGGATACTTGGCCCTGTCTTCTCTCACTCCTCTAACATTCTCGgtaaaaacttcgatttgctaattcctggattaggtcataagatcacaattgctgcaaattagcttggacattgtgtttctgaagttataagcttgtttttttgctctgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G58970.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G58970.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv12s0034g02550.t01 (Vitis vinifera), 5'ss of exon 1
GTGGAGTGCGATAAGAGTACAATCATCAAACGTGCTTCTGTTCCCGCTAGGGATTTGAGGATACTTGGCCCTGTCTTCTCTCACTCCTCTAACATTCTCGgtaaaaacttcgatttgctaattcctggattaggtcataagatcacaattgctgcaaattagcttggacattgtgtttctgaagttataagcttgtttttttgctctgcag
|||| || |||||||| || ||||||| || || | |||| || ||||||||||| || || ||||||||||||||||| |||||||| ||||| ||||| | | | || || | ||| | |||| | | ||||| || | | ||| || || | ||| || || | ||
CTGGAATGTGATAAGAGCACGATCATCAGGCGGGCGGCGATTCCGGCAAGGGATTTGAGAATTCTCGGCCCTGTCTTCTCTCATTCCTCTAATATTCTTGgtaaggaat--ggttagcggtgttttggttaaggtttg-----tttggtgaatttaaatttact--gtctttgacttctgcaaactgcaag--gaattgcatgatttgattMapped 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|47830731|gb|CK120415.1|CK120415EST: GGATTTGAGGATACTTGGCCCTGTCTTCTCTCACTCCTCTAACATTCTCG CCAGAGAGAAAGCTATTGTTGTGAATTTAGAGGTCATAAAGGCAATAGTTA
genomic: GGATTTGAGGATACTTGGCCCTGTCTTCTCTCACTCCTCTAACATTCTCGgtaaaaactt ... tgctctgcagCCAGAGAGAAAGCTATTGTTGTGAATTTAGAGGTCATAAAGGCAATAGTTA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTGGAGTGCGATAAGAGTACAATCATCAAACGTGCTTCTGTTCCCGCTAGGGATTTGAGGATACTTGGCCCTGTCTTCTCTCACTCCTCTAACATTCTCGgtaaaaacttcgatttgctaattcctggattaggtcataagatcacaattgctgcaaattagcttggacattgtgtttctgaagttataagcttgtttttttgctctgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC