Sequence
atgc intronic sequence ATGC exonic sequencegtaagttttatgttgatacgcacttttccctaactccagttgaaaaaacaaatgttgtaggagcaaatactaaaccttgattttgattcagATCTACACCGAAAACTGGGTGAACTCACCGGGACAGTCAGAAGATAACTCGTGGCAAGCTTTTGTTTTTGCTCCAAAGGACAGTTGGTATACTGCTAAGG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G17350.2 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G17350.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA16G01410.1 (Glycine max), 3'ss of exon 4
---------------------------gtaagttttatg-ttgatacgcacttttccctaactccagttgaaaaaacaaatgttgtaggagcaaatactaaaccttgattttgattcagATCTACACCGAAAACTGGGTGAACTCACCGGGACAGTCAGAAGATAACTCGTGGCAAGCTTTTGTTTTTGCTCCAAAGGACAGTTGGTATACTGCTAAGG
|| | |||| ||| | || | | || || | | |||| | || |||||||| | ||||||||||| || || ||||| || ||||| |||||| |||||||| || |||||||||||||||| || || | | | ||||||| |||
gtgagtgcactttttcattatcagtgccaaaatgctatgcttggaaatcagaggaattagatttcatttcaggggt--ggtcttgtgagtattgtgaccggga--tgattttggtgcagATCTACACGGAGAATTGGGTCAATTCACCTGGACAGATGGAAGATAATTCATGGCAAGCTTTTGTTTATGTGCCTGAAGGAAACTGGTATATCATGAAG-
upper sequence: AT1G17350.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA07G04830.1 (Glycine max), 3'ss of exon 4
---------------------------gtaagttttatgtt--gatacgcacttttccctaactccagttgaaaaaacaaatgttgtaggagcaaatactaaaccttgattttgattcagATCTACACCGAAAACTGGGTGAACTCACCGGGACAGTCAGAAGATAACTCGTGGCAAGCTTTTGTTTTTGCTCCAAAGGACAGTTGGTATACTGCTAAGG
|| ||||||| | || | | | || | || || | |||| | || |||||||| | ||||||||||| || || ||||| || ||||| |||||| |||||||| || |||||||||||||||| || || | | || ||||| | | | |||
gtgagtgaaatttttcattgtcagggccaaaattttatgctaggaaatctagagggcttaaatttcatttctttggt--ggtcttgtgagtattgtgaccggga--tgattttggtgcagATCTACACAGAGAATTGGGTCAATTCACCTGGACAGATGGAAGATAATTCATGGCAAGCTTTTGTTTATGTGCCTGAAGGCAACTGGTACATTACCAAG- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cagttgaaaaaacaaatgttgtaggagcaaatactaaaccttgattttgattcagATCTACACCGAAAACTGGGTGAACTCACCGGGACAGTCAGAAGATAACTCGTGGCAAGCTTTTGTTTTTGCTCCAAAGGACAGTTGGTATACTGCTAAGG
aaaaaacaaatgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttttatgttgatacgcacttttccctaactccagttgaaaaaacaaatgttgtaggagcaaatactaaaccttgattttgattcagATCTACACCGAAAACTGGGTGAACTCACCGGGACAGTCAGAAGATAACTCGTGGCAAGCTTTTGTTTTTGCTCCAAAGGACAGTTGGTATACTGCTAAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT