Sequence
atgc intronic sequence ATGC exonic sequencegtaagcagcacacatctccttgcttactcttataaaaccttggataaactctgactggttgaatttctgaaattctagATCTTTCACAATGTCACGAAGAATGTTCTATGTACTGGAGCTAAGGATGTGGTCAAAGAGGGACACAAGAGCTTCCCCAGCGGCCACACATCTT
Basic information
species | Arabidopsis thaliana |
transcript | AT1G15080.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G15080.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os01g47580.1 (Oryza sativa), 3'ss of exon 3
----------------------------------------------------------gtaagcagcacacatctccttgcttactcttataaaaccttggataaactctgactggttgaatttctgaaattctagATCTTTCACAATGTCACGAAGAATGTTCTATGTACTGGAGCTAAGGATGTGGTCAAAGAGGGACACAAGAGCTTCCCCAGCGGCCACACATCTT
|| || || | | | ||| ||||| || | || || || || | || | || | || | || | || ||||| | | || | || || | | ||| |||| |||||||||||||||||||| ||||||||||| || |
gtataacagcaaatctcaacttaattagcccctcaaaacagtcaaacctctctggaatttacgcccca-agaacgcctcgctta-tcgagcgatacac-acatgtgctgtgctgtgctgtgcctgtg----cccagGTGTTCGATAACGTCACCACGGGAGTCATCTGCCACGGCGACGCGAGCGTGATCAAGGAGGGACACAAGAGCTTCCCGAGCGGCCACACTTCAT
upper sequence: AT1G15080.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G024144_T01 (Zea mays), 3'ss of exon 3
--------------------------------------------------------------------------gtaagcagcacacatctccttgcttactctt-ataaaaccttggataaactc---tgactggttga---atttctgaaattctagATCTTTCACAATGTCACGAAGAATGTTCTATGTACTGGAGCTAAGGATGTGGTCAAAGAGGGACACAAGAGCTTCCCCAGCGGCCACACATCTT
|| | | || | ||| || | | |||| || || | || || || || ||| | | |||| | | |||| |||| | | || |||| ||| | | ||| |||| || || ||||||||||||||||||||||||| || |
gtaaccaagcagctccaactccattgctcttcaattttaggctgtatttcattccatcctggtagtacttatgggtcgtcgaaatgcagtggactacttgctatccacctaaccctgagtagttttcctcgatcggctgtcccatatct-acacactagGTGTACAACAACATCACAACGGGAGTCGTATGCCATGGCGATCCTAGCGTGATCAAGGAAGGCTACAAGAGCTTCCCCAGCGGCCACACCTCCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttactcttataaaaccttggataaactctgactggttgaatttctgaaattctagATCTTTCACAATGTCACGAAGAATGTTCTATGTACTGGAGCTAAGGATGTGGTCAAAGAGGGACACAAGAGCTTCCCCAGCGGCCACACATCTT
ttataaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagcagcacacatctccttgcttactcttataaaaccttggataaactctgactggttgaatttctgaaattctagATCTTTCACAATGTCACGAAGAATGTTCTATGTACTGGAGCTAAGGATGTGGTCAAAGAGGGACACAAGAGCTTCCCCAGCGGCCACACATCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT