Sequence
atgc intronic sequence ATGC exonic sequencegtatgttttctctctcgcttacaatgttttcaaagctatatttattcgtcgttatctcactttctttggatgtgtttttgacagATTTTACGCTGCAGAGGTGTTGCTAGCACTAGAGTATCTCCACATGCTCGGTGTTGTTTACAGAGACTTGAAGCCTGAGAATGTTCTGGTTCGAGATGAT
Basic information
species | Arabidopsis thaliana |
transcript | AT2G44830.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G44830.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os04g46180.2 (Oryza sativa), 3'ss of exon 3
------------gtatgttttctctctcgcttacaatgttttcaaagct-atatttattcgtcgttatctc--actttctttggatgtgtttttga-cagATTTTACGCTGCAGAGGTGTTGCTAGCACTAGAGTATCTCCACATGCTCGGTGTTGTTTACAGAGACTTGAAGCCTGAGAATGTTCTGGTTCGAGATGAT
||| | | | | | ||| || | |||| ||| | | | | || | | || || | | | || || || ||| ||||| |||||||| || | ||||| || |||||||| |||||| | || ||||||||||| || ||||||| ||||| ||||| ||||| ||||||
agttttttaactctataatgttagtttgccatactgaacttgaacagcttatacctggccattgctagcactaacatttatatgctctgattccgagcagGTTTTATGCTGCAGAAGTACTTCTAGCTCTGGAGTATCTACACATGTTGGGAGTTGTTTACAGGGATCTGAAGCCAGAGAACGTTCTTGTTCGTGATGATMapped 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|47828723|gb|CK118407.1|CK118407EST: ACTCTAAGGCAACGTCTACCCGGGAAGCATTTCTCGGAGTACGCTGCTCG ATTTTACGCTGCAGAGGTGTTGCTAGCACTAGAGTATCTCCACATGCTCGG
genomic: ACTCTAAGGCAACGTCAACCCGGGAAGCATTTCTCGGAGTACGCTGCTCGgtatgttttc ... tttttgacagATTTTACGCTGCAGAGGTGTTGCTAGCACTAGAGTATCTCCACATGCTCGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaaagctatatttattcgtcgttatctcactttctttggatgtgtttttgacagATTTTACGCTGCAGAGGTGTTGCTAGCACTAGAGTATCTCCACATGCTCGGTGTTGTTTACAGAGACTTGAAGCCTGAGAATGTTCTGGTTCGAGATGAT
atctcac putative branch site (score: 3)
tgttttt putative PPT
tatatttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgttttctctctcgcttacaatgttttcaaagctatatttattcgtcgttatctcactttctttggatgtgtttttgacagATTTTACGCTGCAGAGGTGTTGCTAGCACTAGAGTATCTCCACATGCTCGGTGTTGTTTACAGAGACTTGAAGCCTGAGAATGTTCTGGTTCGAGATGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG