Sequence
atgc intronic sequence ATGC exonic sequencegtaagcttccattcttttgattgcttctagacttatagaaggtctcttttcgtgctcaaatattgtatttcctggagcagATTGCCCAAAGGAACAGCTTAGATGTTGATGTGGACTTAGCTCTTGGTTTTGCCTCGCATTATTGTAAAATCGGAACAATGAAGTGCCTAGTGGAAGAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G59910.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G59910.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA17G00260.1 (Glycine max), 3'ss of exon 2
-------------gtaagcttccattcttttgattgcttctagacttatagaaggtctcttttcgtgctcaaatattgtatttc---ctgga----gcagATTGCCCAAAGGAACAGCTTAGATGTTGATGTGGACTTAGCTCTTGGTTTTGCCTCGCATTATTGTAAAATCGGAACAATGAAGTGCCTAGTGGAAGAAG
||| | ||| || | ||| || | || | | ||| | | || | | | ||||||||| ||||| |||||||| ||||||||||| ||||| || | ||||||||||| |||||| | || || ||||| ||| ||||| | |||||||| |
cttgtgaagtgatgtagtgaattgctgtttatatattatatagtctgctgaaaatttttggttcatatttgtgtaccatgctgtgaatcaaactatgcagATTGCTCAAAGAAACAGCTTGGATGTTGATGTTGACTTGGCGTTGGGTTTTGCCTCCCATTATGGCAAGATAGGAACTATGGAGTGCTTGGTGGAAGAGG
upper sequence: AT3G59910.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA07G40370.1 (Glycine max), 3'ss of exon 3
---------gtaagcttcca---ttcttttgattgcttctaga-cttatagaaggtctcttttcgtgctcaaatattgt-------atttcctggagcagATTGCCCAAAGGAACAGCTTAGATGTTGATGTGGACTTAGCTCTTGGTTTTGCCTCGCATTATTGTAAAATCGGAACAATGAAGTGCCTAGTGGAAGAAG
|| || | |||| || || || || | | ||| | | | || || | || | || ||||||||| ||||| |||||||| ||||||||||| ||||| || | ||||||||||| |||||| | || || ||||| ||| | ||| | |||||||| |
gtgtatgaagtgaggtagtgaatttctgtttatatattatatagtctgctgaaaatttttggtcatgtttgtgtaccatgctgggaatcaaactatgcagATTGCTCAAAGAAACAGCTTGGATGTTGATGTTGACTTGGCGTTGGGTTTTGCCTCCCATTATGGCAAGATAGGAACTATGGAATGCTTGGTGGAAGAGG
upper sequence: AT3G59910.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv05s0094g01540.t01 (Vitis vinifera), 3'ss of exon 5
--------------gtaagcttccattcttttgattg----cttctagacttatagaaggtctcttttcgtgctcaaatattgtatttcctgg--agcagATTGCCCAAAGGAACAGCTTAGATGTTGATGTGGACTTAGCTCTTGGTTTTGCCTCGCATTATTGTAAAATCGGAACAATGAAGTGCCTAGTGGAAGAAG
||| | ||| | || | | | | | ||| | | | | || | | | |||| ||| | |||||||||||||||||||||| ||||||||||| ||||| ||| | || ||||| || || ||||| || || || |||||| |||| |||||||||||||
atttagaaattttagtagaactgcatgatagagagggaggataattggtgctgttaaagtttgtctgacattcttattttccatttttcttggccattagATTGCCCAAAGGAACAGCTTGGATGTTGATGTTGACTTGGCTTTGGGCTTTGCTTCACACTATTGCAAGATTGGTACAATGGAGTGTCTAGTGGAAGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctagacttatagaaggtctcttttcgtgctcaaatattgtatttcctggagcagATTGCCCAAAGGAACAGCTTAGATGTTGATGTGGACTTAGCTCTTGGTTTTGCCTCGCATTATTGTAAAATCGGAACAATGAAGTGCCTAGTGGAAGAAG
tatttcct CT-rich tract
tcaaatattgtattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagcttccattcttttgattgcttctagacttatagaaggtctcttttcgtgctcaaatattgtatttcctggagcagATTGCCCAAAGGAACAGCTTAGATGTTGATGTGGACTTAGCTCTTGGTTTTGCCTCGCATTATTGTAAAATCGGAACAATGAAGTGCCTAGTGGAAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG