Sequence
atgc intronic sequence ATGC exonic sequencegtatataaagaaatgttaagctgttgtgtgttgttagttctgagttcaaatttattatactaaggtgtttttgtttatagGTTTCGGAAGTAAGCTCTCTTTTGGGTAGGGCTGGTACTATGGGACTTGGTAAAGCTGTGGATGTGTTGGATACACTCGGGAGTAGTATGACGAATCTGA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G34320.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G34320.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G148773_T02 (Zea mays), 3'ss of exon 1
-------------gtatataaagaaatgttaa----gct-gttgtgtg---ttgttagttctgagttcaaatttattatactaaggtgtttttgtttatagGTTTCGGAAGTAAGCTCTCTTTTGGGTAGGGCTGGTACTATGGGACTTGGTAAAGCTGTGGATGTGTTGGATACACTCGGGAGTAGTATGACGAATCTGA
|| || || | | | || ||| ||| | | | || || | | || | || | | || || ||| ||||||||||||||||||||| || ||||||| ||| ||||| || ||||| ||||| ||||| ||| | |||||||| || ||||| ||||| || |||
cccttaactttttgttcatgaattattctaaattctgctcgttcagagagatcgtcagaccctatgccacacttgatgttttatttccttgttgag-atagGTTTCGGAAGTAAGCTCAATTCTGGGTAGAGCTAGTACTGCTGGCCTTGGAAAAGCAGTGGAAGTGCTTGATACACTTGGCAGTAGCATGACAGATTTGA
upper sequence: AT1G34320.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv18s0076g00260.t01 (Vitis vinifera), 3'ss of exon 1
------------------gtatataaagaaatgttaagctgttgtgtgttgttagttctgagttcaaatt--tattatactaaggtgtttttgtttat-agGTTTCGGAAGTAAGCTCTCTTTTGGGTAGGGCTGGTACTATGGGACTTGGTAAAGCTGTGGATGTGTTGGATACACTCGGGAGTAGTATGACGAATCTGA
||||| | ||||| | | || ||| || | | || || | | | | || | || ||| || || ||||||| ||||| ||||| |||||||| |||||||||||| || ||||| || || || || || ||||| ||||| || ||||| ||||| ||| ||
acagaatgatattcattattatattg-gtaatgtgatgttgaattgtcttaatggatcaatatttttagtagcactttaatggattgatttggtataccagGTTTCAGAAGTGAGCTCACTTTTGGGCAGGGCTGGTACTGCTGGGCTTGGGAAGGCAGTTGAAGTTTTGGACACACTTGGTAGTAGCATGACAAATTTGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgtgttgttagttctgagttcaaatttattatactaaggtgtttttgtttatagGTTTCGGAAGTAAGCTCTCTTTTGGGTAGGGCTGGTACTATGGGACTTGGTAAAGCTGTGGATGTGTTGGATACACTCGGGAGTAGTATGACGAATCTGA
tttttgttt CT-rich tract
agttcaaatttattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatataaagaaatgttaagctgttgtgtgttgttagttctgagttcaaatttattatactaaggtgtttttgtttatagGTTTCGGAAGTAAGCTCTCTTTTGGGTAGGGCTGGTACTATGGGACTTGGTAAAGCTGTGGATGTGTTGGATACACTCGGGAGTAGTATGACGAATCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG