Sequence
atgc intronic sequence ATGC exonic sequencegtattgtctacttggttatcatcaacgttattgaagagtatgattttgtctcgattcttataagctaccctttttctctctctctttttggtaagTGTATTGCATGAGTACAAAGAGTGGGATGAAAACAATCCCCAATTAACAACATGCAACAAAGACACAAAGAATTTGATCCAAAGCAACACTGTTCCTCAA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G55130.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G55130.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA08G20640.1 (Glycine max), 3'ss of exon 5
gtattgtctacttggttatcat-caacgttattgaagagtatgattttgtctcgattcttataagctaccctttttct-----ctctctctttttggtaagTGTATTGCATGAGTACAAAGAGTGGGATGAAAACAATCCCCAATTAACAACATGCAACAAAGACACAAAGAATTTGATCCAAAGCAACACTGTTCCTCAA
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-aattaagcacctgtatgttgtatttctttcttgtttgatttcaaatgactgcttagtgtgtattctgtctttctgatatgaactctgtaactgtaaacagTATAAATCATGAATACAAGGAGTGGAATGACAAGAATCCACAGGTAACAACATGCAATAAAGATACCAAGAATTTGATGCAAGGTAGTACTGTCCCACAA
upper sequence: AT1G55130.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA07G01240.1 (Glycine max), 3'ss of exon 5
-------gtattgtctacttggttatcatcaacgttattgaagagtatgattttgtctcgattcttataagctaccctttttctctctctctttttggtaagTGTATTGCATGAGTACAAAGAGTGGGATGAAAACAATCCCCAATTAACAACATGCAACAAAGACACAAAGAATTTGATCCAAAGCAACACTGTTCCTCAA
| ||| | | || || || | | |||| | | | | || | | | | | |||| | | | ||| || || || ||||| |||||| |||| || ||||| || ||||||||||||| ||||| || ||||||||||| ||| | | ||||| || |||
aataaagcaactgtatgttgtatttctttcttgtttgatttcaa--atgactgcttaaggtgtgttctgtctttcttatatgaactctgtaactgtaaacagTATAAATCACGAATACAAGGAGTGGAATGACAAGAATCCACAGGTAACAACATGCAATAAAGATACCAAGAATTTGATGCAAGGTAGTACTGTCCCACAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgattttgtctcgattcttataagctaccctttttctctctctctttttggtaagTGTATTGCATGAGTACAAAGAGTGGGATGAAAACAATCCCCAATTAACAACATGCAACAAAGACACAAAGAATTTGATCCAAAGCAACACTGTTCCTCAA
ttcttataagctaccc CT-rich tract
attcttataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattgtctacttggttatcatcaacgttattgaagagtatgattttgtctcgattcttataagctaccctttttctctctctctttttggtaagTGTATTGCATGAGTACAAAGAGTGGGATGAAAACAATCCCCAATTAACAACATGCAACAAAGACACAAAGAATTTGATCCAAAGCAACACTGTTCCTCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA