Sequence
atgc intronic sequence ATGC exonic sequence...ttttaatctttacttaaaggaacttgagttttttttttcctttgcaatttattatcttactccatttaaataggcatatttccatgcattttgtatgtagTTGCACTGCTTGGAGAAAAATGGTCAGCAGATAACAAAGATGGTGTCCTATTGTGCTTATCACAG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G27910.1 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G27910.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA06G13330.1 (Glycine max), 3'ss of exon 15
ttttaatctttacttaaaggaacttgagttttttttttcctttgcaattt--attatcttactccatttaaataggcatat---ttccatgcattttgtatgtagTTGCACTGCTTGGAGAAAAATGGTCAGCAGATAACAAAGATGGTGTCCTATTGTGCTTATCACAG
||| | | || | | | |||| ||| | | || | | | | | ||| || || | | ||| || | | || ||| ||||||| || |||||||||||||| |||||| |||||| ||||| || |||||||||||||||||
--ttattttctatt--aggattcttgggttatagagccctaacacattcttgaatgtttta-tctgttgggacaattttattaattttctccccgttaaatgcagTTGCATTGTTTGGAGAAAAATGGCAAGCAGACAACAAAAATGGTCTCGTATTGTGCTTATCACAG
upper sequence: AT4G27910.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA04G41500.1 (Glycine max), 3'ss of exon 15
---ttttaatctttacttaaaggaacttgagttttttttttcctttgcaatttattatcttactccatttaaataggcatatttccatgcattttgtatgtagTTGCACTGCTTGGAGAAAAATGGTCAGCAGATAACAAAGATGGTGTCCTATTGTGCTTATCACAG
|| || || | | || | | || || | | ||| | |||||| | | | | | ||||| |||| ||| ||||||| || |||||||||||||| |||||| |||||| ||||| || ||||||||||| |||||
ctattaggattcttgggttatagagccctaacacattcttgaatgttgaatgttttatct-gttgggataattttattaaatttctccccatt--aaatgcagTTGCATTGTTTGGAGAAAAATGGCAAGCAGACAACAAAAATGGTCTCTTATTGTGCTTACCACAG
upper sequence: AT4G27910.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: Vv16s0098g00350.t01 (Vitis vinifera), 3'ss of exon 15
ttttaatctttacttaaaggaacttgagttttttttttcctttgcaatttattatcttactccatttaaataggcatatttcc---atgcattttgtatgtagTTGCACTGCTTGGAGAAAAATGGTCAGCAGATAACAAAGATGGTGTCCTATTGTGCTTATCACAG
| || | | | || |||| |||| || | | || || | || | | | | |||| | |||| || | || |||||||| |||||| ||||||||| ||||||||||||||||| || |||||||||||||||||
-agagaactctgcat--agcttgttgaaacttttattctgagtcaaggcgatgattgttctgctgatcagtgattgcattttcttcatgccttctaattgcagTTGCACAGCTTGGTGAAAAATGGCAGACAGATAACAAAGATGGTTTCATATTGTGCTTATCACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatttattatcttactccatttaaataggcatatttccatgcattttgtatgtagTTGCACTGCTTGGAGAAAAATGGTCAGCAGATAACAAAGATGGTGTCCTATTGTGCTTATCACAG
atcttac putative branch site (score: 3)
atttaaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttaatctttacttaaaggaacttgagttttttttttcctttgcaatttattatcttactccatttaaataggcatatttccatgcattttgtatgtagTTGCACTGCTTGGAGAAAAATGGTCAGCAGATAACAAAGATGGTGTCCTATTGTGCTTATCACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - -acttaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatgca