Sequence
atgc intronic sequence ATGC exonic sequence...atcaaacgaaattaaggaatctttaaggggaatatattcttggtatctgactttggaatttgtccatggagctttgctgatgtaatgttgttgtttccagATGATGATTTTAGAGATCTTGTGGACAAGGTTCCTCCAGGTTGCAGAATGACAATCATTTCAGACTCTTGTCACAGTGGTGGCCTAATCGACGAAGCCAA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G79340.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Mapped 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|124755217|gb|EH845347.1|EH845347EST: TTCGACGAGTGTATTGTTCCTTGCGACATTGAATCTGATTACTG ATGATGATTTTAGAGATCTTGTGGACAAGGTTCCTCCAGGTTGCAGAATGA
genomic: TTCGACGAGTGTATTGTTCCTTGCGACA-TGAATCTGATTACTGgtgagtttta ... ttgtttccagATGATGATTTTAGAGATCTTGTGGACAAGGTTCCTCCAGGTTGCAGAATGA
EST:
gi|47831586|gb|CK121270.1|CK121270EST: CACTGGTTTCGACGAGTGTATTGTTCCTTGCGACATGAATCTGATTACTG ATGATGATTTTAGAGATCTTGTGGACAAGGTTCCTCCAGGTTGCAGAATGA
genomic: CACTGGTTTCGACGAGTGTATTGTTCCTTGCGACATGAATCTGATTACTGgtgagtttta ... ttgtttccagATGATGATTTTAGAGATCTTGTGGACAAGGTTCCTCCAGGTTGCAGAATGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctgactttggaatttgtccatggagctttgctgatgtaatgttgttgtttccagATGATGATTTTAGAGATCTTGTGGACAAGGTTCCTCCAGGTTGCAGAATGACAATCATTTCAGACTCTTGTCACAGTGGTGGCCTAATCGACGAAGCCAA
tgctgat putative branch site (score: 3)
ttgtttcc putative PPT
aatttgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atcaaacgaaattaaggaatctttaaggggaatatattcttggtatctgactttggaatttgtccatggagctttgctgatgtaatgttgttgtttccagATGATGATTTTAGAGATCTTGTGGACAAGGTTCCTCCAGGTTGCAGAATGACAATCATTTCAGACTCTTGTCACAGTGGTGGCCTAATCGACGAAGCCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - aacgaaa