Sequence
atgc intronic sequence ATGC exonic sequencegtacgaacaatctactttgtctattgaattcaaatttgctgaggattgttgatacttactaatcttctctcactttgtctgtagGTTGTGATCTGGTGGGCTGGTCTAATGAGAGGTGCTGTATCTATGGCTCTTGCCTACAATAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G05030.2 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G05030.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: LOC_Os07g47100.1 (Oryza sativa), 3'ss of exon 12
gtacgaacaatctactttgtctattgaattcaaatttgctgaggattgttga-tacttactaatcttctctcactttgtctgtagGTTGTGATCTGGTGGGCTGGTCTAATGAGAGGTGCTGTATCTATGGCTCTTGCCTACAATAAG
|| | | | | || | || | || | | ||| | || ||| | ||||||| |||||||| || ||||||||||| || |||||||| ||||| || || |||||||| |||||||||
gtgagtatctggtgtatgatcagacaattttcatttgaattcgacttgccatctgctaactgaatttctctcg--------atagGTTGTAATATGGTGGGCTGGGCTGATGAGAGGAGCTGTGTCGATTGCTCTTGCTTACAATAAG
upper sequence: AT3G05030.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: PP1S207_23V6.1 (Physcomitrella patens), 3'ss of exon 12
-----gtacgaacaatctactttgtct---attgaattcaaatttg--ctgaggattgttgatacttact--aatcttctctcactttgt----ctgtagGTTGTGATCTGGTGGGCTGGTCTAATGAGAGGTGCTGTATCTATGGCTCTTGCCTACAATAAG
| || || ||| | || |||| | || ||| ||| | || | | |||| | | | | ||| ||| || ||||||||||||||||||| | ||||||||||| |||||||| || | || | ||| ||
caacattgcggttgctcatatttaagtgggatcatattcccgtgtgtactgccacttgacagtgctgagtgtaatcgttttggattgtgttatactgcagATTGTGATCTGGTGGGCTGGATTGATGAGAGGTGCAGTATCTATTGCCTTAGCATTTAATCAGMapped 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|116454479|gb|EG497071.1|EG497071EST: CAGAGCGAGAAAATCAGCATCAAGCAGCAA GTTGTGATCTGGTGGGCTGGTCTAATGAGAGGTGCTGTATCTATGGCTCTT
genomic: CAGAGCGAGAAAATCAGCATCAAGCAGCAAgtacgaacaa ... ttgtctgtagGTTGTGATCTGGTGGGCTGGTCTAATGAGAGGTGCTGTATCTATGGCTCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaaatttgctgaggattgttgatacttactaatcttctctcactttgtctgtagGTTGTGATCTGGTGGGCTGGTCTAATGAGAGGTGCTGTATCTATGGCTCTTGCCTACAATAAG
tcttctctcactttgt CT-rich tract
ttactaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgaacaatctactttgtctattgaattcaaatttgctgaggattgttgatacttactaatcttctctcactttgtctgtagGTTGTGATCTGGTGGGCTGGTCTAATGAGAGGTGCTGTATCTATGGCTCTTGCCTACAATAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG