Sequence
atgc intronic sequence ATGC exonic sequence...ctaatatttattatacaatctccatataatcacatgtctataataactacattttcaaagatattttggatgtaacatatacaatgttaacttggtgcagTCGTTATGTAACGCGTGTGGAATCCGATTCAAGAAAGAGGAGAGGCGTGCGACGGCCAGAAACTTAACGATCTCCGGTGGAGGTTCATCAGCGGCAGAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G18380.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G18380.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: LOC_Os01g47360.1 (Oryza sativa), 3'ss of exon 1
---------------------------------------------------ctaatatttattatacaatctccatataatcacatgtctata----ataactacattttcaaagatattt-------tggatgt--aacatatacaatgttaacttggtgcagTCGTTATGTAACGCGTGTGGAATCCGATTCAAGAAAGAGGAGAGGCGTGCGACGGCCAGAAACTTAACGATCTCCG-GTGGAGGTTCATCAGCGGCAGAAG
| || | ||| | ||| | || | || | | | ||| |||| || || | | | |||| ||| ||| | | ||| | |||||| | || ||||||||||| ||||| | |||||||||||||||||| || | || | | || | | | | || | ||||
gtactgtccattgcctacaaaagcacactgatcataacatacataattacacaaacacgtataagctaatg-caatgtgctcgcgtacacaagcagcatacacgcattctcctgcatgtgtgatcgattcgatgctaaacgtatgcgtgatctgctt--ttcagTCGCTGTGCAACGCGTGTGGCATCCGGTACAAGAAAGAGGAGAGGCGCGCCGCCGCGGCGGCCGTGGCGCCGACGGCGCTGGCGTCGGACGGCGGGGTGG- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actacattttcaaagatattttggatgtaacatatacaatgttaacttggtgcagTCGTTATGTAACGCGTGTGGAATCCGATTCAAGAAAGAGGAGAGGCGTGCGACGGCCAGAAACTTAACGATCTCCGGTGGAGGTTCATCAGCGGCAGAAG
attttcaaagatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctaatatttattatacaatctccatataatcacatgtctataataactacattttcaaagatattttggatgtaacatatacaatgttaacttggtgcagTCGTTATGTAACGCGTGTGGAATCCGATTCAAGAAAGAGGAGAGGCGTGCGACGGCCAGAAACTTAACGATCTCCGGTGGAGGTTCATCAGCGGCAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - -atctcca
- - - - - - - - - - - - - -aatcaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - attttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acatata