Sequence
atgc intronic sequence ATGC exonic sequence...tattgctaataatctcatgaacgtgatagatttatatgttttgggggacccttttggtttctgaataattatgggaatgatttttgtatttgtctggcagGGACCAGAGATTCGAACCGGGTTCTTAAAGGATGGGAAACCTATCCAGCTCAAACAAGGCCAAGAAATCACCATTTCAACTGACTATGACTTGAAGGGTG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G26390.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G26390.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA07G35110.1 (Glycine max), 3'ss of exon 1
--tattgctaataatctcatgaacgtgatagatttatatgttttgggggacccttttggtttctgaataattatgggaatgatttttgtatttgtctggc---agGGACCAGAGATTCGAACCGGGTTCTTAAAGGATGGGAAACCTATCCAGCTCAAACAAGGCCAAGAAATCACCATTTCAACTGACTATGACTTGAAGGGTG
| ||| || | | || | || | || ||||| || | | || || | | || | ||||| | || |||| || ||||||||||| ||||| | ||||| | || |||||||| || |||||||| | ||||| |||||||| |||||||||||| | |||||||
tgtgttggtattgcttcttggaccatg-tggacca----gtttttaaaaacttccatacaattaagattatctttcattttatgtgactatttccattgctgtagGGGCCTGAGATTCGAACTGGGTTTCTCAAGGACAGTAAGCCTATCCAACTGAAACAAGGTAATGAAATAACCATTTCCACTGACTATGACCTAAAGGGTG
upper sequence: AT4G26390.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv08s0007g07600.t01 (Vitis vinifera), 3'ss of exon 1
----tattgctaataatctcatgaacgtgatagatttata--tgttttgggggacccttttggtttctgaataattatgggaatgatttttgtatttgtctggcagGGACCAGAGATTCGAACCGGGTTCTTAAAGGATGGGAAACCTATCCAGCTCAAACAAGGCCAAGAAATCACCATTTCAACTGACTATGACTTGAAGGGTG
| | | || | | | | |||| | | | || | | | | ||| ||| | || | | |||| | | |||||||| ||||||||||| || || || || ||||||||||| ||| |||| |||||| | || ||||| |||||||| || ||||||||| | | |||||||
agctgacctttcttggtccgaagcaggggatattaccaaaaatattccagagaattcctttttttttt------ttttttttttaatttggatgtaaacatggcagGGTCCAGAGATTCGTACTGGATTTTTGAAGGATGGGAAGCCTGTCCAACTCAAAAAGGGTCAAGAGATCACCATCTCCACTGACTATAGCATCAAGGGTG
upper sequence: AT4G26390.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv06s0004g00130.t01 (Vitis vinifera), 3'ss of exon 1
tattgctaataatctcatgaacgtgatagatttatat---gttttgggggacccttttggtttctgaataattatgggaatgatttttgtatttgtctggcagGGACCAGAGATTCGAACCGGGTTCTTAAAGGATGGGAAACCTATCCAGCTCAAACAAGGCCAAGAAATCACCATTTCAACTGACTATGACTTGAAGGGTG
|| | | | || || || | | || | | | ||| | | |||| | || | || | |||| ||||| ||||| |||||||||||||| || ||||||| || || ||||| || || ||||||||||| |||||||| || ||||||||| || | |||||||
-atgacgagcttctttgtggttatggtatcatcaaattgagaactaaaaaattaaagtggaattttcccaattgtt--tatttcatctgcaaatgtcaaacagGGTCCAGAAATTCGAACCGGGTTTTTGAAGGATGAAAAGCCCATCCATCTGAAGCAAGGCCAAGAGATCACCATATCCACTGACTATAACATAAAGGGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggacccttttggtttctgaataattatgggaatgatttttgtatttgtctggcagGGACCAGAGATTCGAACCGGGTTCTTAAAGGATGGGAAACCTATCCAGCTCAAACAAGGCCAAGAAATCACCATTTCAACTGACTATGACTTGAAGGGTG
tttgtct CT-rich tract
aatgatttttgtattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tattgctaataatctcatgaacgtgatagatttatatgttttgggggacccttttggtttctgaataattatgggaatgatttttgtatttgtctggcagGGACCAGAGATTCGAACCGGGTTCTTAAAGGATGGGAAACCTATCCAGCTCAAACAAGGCCAAGAAATCACCATTTCAACTGACTATGACTTGAAGGGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - aatctca
- - - - - - - - - - - - - - - - - - -gttttgg