Sequence
atgc intronic sequence ATGC exonic sequencegtaccaactacactgcacactcacgcttgtcatgcaatttttatccttatccaagaataacatctaatacagaaagatctacatctggataatatctgcagATCAGCAATTTTGAATACTTAATGCAGCTTAACACGTTGGCTGGCCGTAGTTACAATGACATTACTCAG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G45540.2 |
intron # | 21 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G45540.2 (Arabidopsis thaliana), 3'ss of exon 21
lower sequence: LOC_Os04g46894.1 (Oryza sativa), 3'ss of exon 19
gtaccaactacactgcacactcacgcttgtcatgcaatttttatccttatccaagaataacatctaatacagaaagatctacatctggataatatctgcagATCAGCAATTTTGAATACTTAATGCAGCTTAACACGTTGGCTGGCCGTAGTTACAATGACATTACTCAG
| ||| || | ||| ||||||| | || | | ||| | || | || ||| ||||| ||||||||||| ||||| ||| | || ||||| ||||||| || |||||||||||||| ||||||
--------------gtacatgaacac--aacatataatttttctatgctgttgttggtagctttgaatctcagtatattca----------atttcttcagATTAGCAATTTTGAGTACTTGATGGAACTGAACACACTGGCTGGACGAAGTTACAATGACATAACTCAG
upper sequence: AT2G45540.2 (Arabidopsis thaliana), 3'ss of exon 21
lower sequence: GRMZM2G044143_T01 (Zea mays), 3'ss of exon 19
gtaccaactacactgcacactcacgcttgtcatgcaatttttatccttatccaagaataacatctaatacagaaagatctacatctggataatatctgcagATCAGCAATTTTGAATACTTAATGCAGCTTAACACGTTGGCTGGCCGTAGTTACAATGACATTACTCAG
| |||| || ||||| || | | | | || ||| | |||| | | ||| ||| | | ||||||| ||||||||| ||||||||| | |||||||| ||||||| || |||||||||||||||||||||
--------------gtacacataca-ttgtcctgtgctatatgttggtagttt----taatacctaa-----------ccatgtct----aatttgttcagATCAACAATTTTGAGTACTTAATGGAACTTAACACACTGGCTGGGCGCAGTTACAATGACATTACTCAG
upper sequence: AT2G45540.2 (Arabidopsis thaliana), 3'ss of exon 21
lower sequence: PP1S62_38V6.1 (Physcomitrella patens), 3'ss of exon 20
--gtaccaactacactgcacactcacgcttgtcatgcaatttttatccttatccaagaataacatctaatacagaaagatctacatctggataatatctgcagATCAGCAATTTTGAATACTTAATGCAGCTTAACACGTTGGCTGGCCGTAGTTACAATGACATTACTCAG
||| | | ||| | || | | | | || || || || ||| || | || | | ||||| | | |||||||| ||||| || |||||||||||||| ||||| ||||||||| | |||||||| |||||||||
cagtagta-ttgttttgccaatcagagcggacctttctaacttaattttttcgtaaaaattcggcgcaacgctttaatctttggggttggat--tttgaacagATCAGTAATTTCGAGTACTTAATGCAGCTGAACACTTTGGCTGGCAGATCATACAATGATATTACTCAGMapped 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|124705874|gb|EH797276.1|EH797276EST: AACAGCTTTTGAGAAGAACTCAGTTAATGGAGCGCTTGGCTAGATGGGAG ATCAGCAATTTTGAATACTTAATGCAGCTTAACACG
genomic: AACAGCTTTTGAGAAGAACTCAGTTAATGGAGCGCTGGGCTAGATGGGAGgtaccaacta ... atatctgcagATCAGCAATTTTGAATACTTAATGCAGCTTAACACG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatccaagaataacatctaatacagaaagatctacatctggataatatctgcagATCAGCAATTTTGAATACTTAATGCAGCTTAACACGTTGGCTGGCCGTAGTTACAATGACATTACTCAG
aataacatctaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaccaactacactgcacactcacgcttgtcatgcaatttttatccttatccaagaataacatctaatacagaaagatctacatctggataatatctgcagATCAGCAATTTTGAATACTTAATGCAGCTTAACACGTTGGCTGGCCGTAGTTACAATGACATTACTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT