Sequence
atgc intronic sequence ATGC exonic sequencegtacgtctctaaacaaatttatgaatatcgtttttacttttggttttatcctatttaattcatggatttgtaccaattctctctattagattatatggagagagtgtagttaatgattatcaagtaccattatattcttggaccacaaattcaccagggactttactccctttactgtttcagTTGGCCGATTTGTGATTGTTTGATTGCTTTCTATTCCTCTGGATATCCTCTTGAGAAAGTTCAAGCATATTCTTCTTTAAGAAA
Basic information
species | Arabidopsis thaliana |
transcript | AT5G15070.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G15070.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 1
gtacgtctctaaacaaatttatgaatatcgtttttacttttggttttatcctatttaattcatggatttgtaccaattctctctattagattatatggagagagtgtagttaatgattatcaagtaccattatattcttggaccacaaattcaccagggactttactccctttactgtttcagTTGGCCGATTTGTGATTGTTTGATTGCTTTCTATTCCTCTGGATATCCTCTTGAGAAAGTTCAAGCATATTCTTCTTTAAGAAA
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-------------------------------------------------------------------------cacttgcaacatttaagttatagctgaactattttatttttgttcaccttttagatgttaagagtcatgctgttaatt----------tttaaatattgtgttatttcagCTGGCCAATATGTGATTGTTTGATTGCTTTCTATTCCTCGGGATATCCCCTTGAAAAGGCTGCGGCATATGCTACTTTAAGAAA
upper sequence: AT5G15070.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA13G05060.1 (Glycine max), 3'ss of exon 3
gtacgtctctaaacaaatttatgaatatcgtttttacttttggttttatcctatttaattcatggatttgtaccaattctctctattagattatatggagagagtgtagttaatgattatcaagtaccattatattcttggaccacaaattcaccagggactttactccctttactgtttcagTTGGCCGATTTGTGATTGTTTGATTGCTTTCTATTCCTCTGGATATCCTCTTGAGAAAGTTCAAGCATATTCTTCTTTAAGAAA
| ||| | ||| || | || | | | ||| | ||| || || | | | | | |||| | | | | |||||| ||||| | ||||| ||||||||||||||||||||||| |||||||| ||||| || | | | |||||| || ||||||||||
-------------------------------------------------------------------------------acgctacaacatt-taagttatacctgaactattttatttttgttcacc-ttgtagatgttaagagtcatgctgttaatg--tttaaacattgtgttatttcagCTGGCCAGTATGTGACTGTTTGATTGCTTTCTATTCCTCGGGATATCCCCTTGAAAAGGCTGAGGCATATGCTGCTTTAAGAAA
upper sequence: AT5G15070.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA09G37610.1 (Glycine max), 3'ss of exon 1
gtacgtctctaaacaaatttatgaatatcgtttttacttttggttttatcctatttaattcatggatttgtaccaattctctctattagattatatggagagagtgtagttaatgattatcaagtaccattatattcttgga---ccacaaattcaccagggactttactccctttactgtttcagTTGGCCGATTTGTGATTGTTTGATTGCTTTCTATTCCTCTGGATATCCTCTTGAGAAAGTTCAAGCATATTCTTCTTTAAGAAA
||| | | | | | || | || ||| || || || |||| | | | |||| | | |||||||| ||||| | || ||||||||||||||||| |||||||||||||||| || || || | | |||||||| || ||||||||||
--------------------------------------------------------------------------------------gagactcgtaagttatggctgaaatattccttgcttcaacattttaggtttttagagttccactgttggcatactaaatttatagattatgttgtttcagCTGGCCAGTGTGCGATTGTTTGATTGCTTTTCATTCCTCTGGATATCCCCTGGAAAAGGCTGAAGCATATGCTGCTTTAAGAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attatattcttggaccacaaattcaccagggactttactccctttactgtttcagTTGGCCGATTTGTGATTGTTTGATTGCTTTCTATTCCTCTGGATATCCTCTTGAGAAAGTTCAAGCATATTCTTCTTTAAGAAA
ctttactccctttact CT-rich tract
acaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgtctctaaacaaatttatgaatatcgtttttacttttggttttatcctatttaattcatggatttgtaccaattctctctattagattatatggagagagtgtagttaatgattatcaagtaccattatattcttggaccacaaattcaccagggactttactccctttactgtttcagTTGGCCGATTTGTGATTGTTTGATTGCTTTCTATTCCTCTGGATATCCTCTTGAGAAAGTTCAAGCATATTCTTCTTTAAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA