Sequence
atgc intronic sequence ATGC exonic sequencegtgagagtttgatcgcttagcacaaatatttctaaacttttgtatagagttgaatccatccacataaatctctaatttctttttgcagATCGTTTTCAGAGAAGATTTTGGAACTGAAGGTCGCGGTGGATATTTTGATGAATACGG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G27300.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G27300.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA19G22690.1 (Glycine max), 3'ss of exon 7
------gtgagagtttgatcgcttagcacaaatatttc-----taaacttttgtatagagttgaatccatccacataaatctctaatttc-tttttgcagATCGTTTTCAGAGAAGATTTTGGAACTGAAGGTCGCGGTGGATATTTTGATGAATACGG
|| | | | || | || || || | | |||| ||| ||| | | | | | || ||| ||| ||||||||||||||||||| ||||||||||||||||||| |||||||||||||| | || ||
aatttggtctgtctgttattacctaattcatctactgcatgaccaaacatttatatgccatatcttaaacttgagtttttggctgtttttactttggcagATCGTTTTCAGAGAAAATTTTGGAACTGAAGGTCGAGGTGGATATTTTGACCAGTATGG
upper sequence: AT3G27300.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA19G24250.1 (Glycine max), 3'ss of exon 7
---gtgagagtttgatcgcttagcacaaat--atttctaaacttttgtatagagttgaatccatcc----acataaatct--ctaatttctttttg-cagATCGTTTTCAGAGAAGATTTTGGAACTGAAGGTCGCGGTGGATATTTTGATGAATACGG
| ||| | || | || | | | || | | |||| | || || | | | | || | | || ||||| ||||||||||| |||||||||||||| || || |||||||||||||| |||| ||
cttaacaatattttgttgccttatctaattcaactactgcattaccgtatttgatatggcacacttttaaacttgagttttgctgtcaattctctgacagATAGTTTTCAGAGAGGATTTTGGAACTGATGGCCGTGGTGGATATTTTGACCAATATGG
upper sequence: AT3G27300.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA16G06850.1 (Glycine max), 3'ss of exon 7
---gtgagagtttgatcgcttagcacaaat--atttctaaacttttgta--tagagttgaatccatccacataaatctctaatt-----tctttttgcagATCGTTTTCAGAGAAGATTTTGGAACTGAAGGTCGCGGTGGATATTTTGATGAATACGG
| ||| | || | || | | | || | | | | | | | | | | | | | | | | | ||||| ||||||||||| |||||||||||||| || || |||||||||||||| | || ||
attaacaatcttttgttgccttatctaattcaactactgcattgccagagttgatatggcacaattttaaactagagtttggctgttaattctatgacagATAGTTTTCAGAGAGGATTTTGGAACTGATGGCCGTGGTGGATATTTTGACCAGTATGG
upper sequence: AT3G27300.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv14s0171g00490.t01 (Vitis vinifera), 3'ss of exon 7
-------gtgagagtttga--tcgcttagcacaaa-tatttctaaacttttgtatagagttgaatccatccacataa--atctctaatttctttttgcagATCGTTTTCAGAGAAGATTTTGGAACTGAAGGTCGCGGTGGATATTTTGATGAATACGG
| | |||| || || | | |||||| ||| | | | || | || | || | ||| ||| |||||| || ||||| || |||||||||||||||||||| |||||||||||||||||||| ||
ggttacctcaaaatgttgaagtctctgatcgttttctatttcaaaataagtaatatgccataaacttaagcatgtggctattattttttttctttggcagATTGTGTTCAGGGAGGATTTTGGAACTGAAGGTCGTGGTGGATATTTTGATGAATATGG
upper sequence: AT3G27300.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: EFJ21593 (Selaginella moellendorffii), 3'ss of exon 6
gtgagagtttgatcgcttagcacaaatatttctaaacttttgtatagagttgaatccatccacataaatctctaatttctttttgcagATCGTTTTCAGAGAAGATTTTGGAACTGAAGGTCGCGGTGGATATTTTGATGAATACGG
| || | || |||| | ||| | | ||||||| || |||| || ||||||||||||| ||||||||||| || ||||| ||||| ||
-----------------------------------gtatgggtgacaatgacaaatcatcgctagtgttctaaatagcatacatgcagATTGTGTTCAAGGAGAATTTTGGAACTGATGGTCGCGGTGGCTACTTTGACGAATATGG
upper sequence: AT3G27300.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: EFJ23968 (Selaginella moellendorffii), 3'ss of exon 6
gtgagagtttgatcgcttagcacaaatatttctaaacttttgtatagagttgaatccatccacataaatctctaatttctttttgcagATCGTTTTCAGAGAAGATTTTGGAACTGAAGGTCGCGGTGGATATTTTGATGAATACGG
| || | || |||| | ||| | | ||||||| || ||||| || ||||||||||||| ||||||||||| || ||||| ||||| ||
-----------------------------------gtatgggtgacaatgacaaatcatcgctagtgttctaaatagcatacatgcagATTGTGTTCAGGGAGAATTTTGGAACTGATGGTCGCGGTGGCTACTTTGACGAATATGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaacttttgtatagagttgaatccatccacataaatctctaatttctttttgcagATCGTTTTCAGAGAAGATTTTGGAACTGAAGGTCGCGGTGGATATTTTGATGAATACGG
tctctaatttcttttt CT-rich tract
ataaatctctaatttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagagtttgatcgcttagcacaaatatttctaaacttttgtatagagttgaatccatccacataaatctctaatttctttttgcagATCGTTTTCAGAGAAGATTTTGGAACTGAAGGTCGCGGTGGATATTTTGATGAATACGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA