Sequence
atgc intronic sequence ATGC exonic sequencegtatgttcataaaggcattgccattagctttggttttttatacttatgtgtttggattgtagctgctaaagagaaaatgtgaaacctgtttataaagtattctgaatttgggtatgacatgtgttcttttcctttgcctgcagATTCAAAGAAACCTGCAACTCCGAATAGAAGAACAAGGCAAGTACCTGCAAATGATGTTCGAGAAGCAAAACTCTGGTCTTACCAAAGGGACAGCCTCAA
Basic information
species | Arabidopsis thaliana |
transcript | AT4G28610.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G28610.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA19G35080.1 (Glycine max), 3'ss of exon 8
gtatgttcataaaggcattgccattagctttggttttttatactt-atgtgtttggattgtagctgctaaagagaaaatgtgaaacctgtttataaagtattctgaatttgggtatgacatgtgttcttttcctttgcctgcagATTCAAAGAAACCTGCAACTCCGAATAGAAGAACAAGGCAAGTACCTGCAAATGATGTTCGAGAAGCAA---AACTCTGGTCTTACCAAAGGGACAGCCTCAA
|| | | | | | || || | || ||| ||| | |||| || || || ||| || || ||||||||||||| || || | ||||||||||||||||| | |||||| ||||||||||| |||||||| || |||| || | | | || |
------------------------------------cccatgcatgaaatttccaaggcatactcacttctctcttatggttgttcctttttccacggtat----gatctga-tacagttctctcctattttctatgtt---agATTCAAAGAAATCTACAGTTGCGAATAGAAGAACAAGGAAGGTACCTTCAAATGATGTTTGAGAAGCAGTGCAAACCTGGCATTGAAACATTTAAGGCAT---
upper sequence: AT4G28610.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA13G18800.1 (Glycine max), 3'ss of exon 5
gtatgttcataaaggcattgccattagctttggttttttatacttatgtgtttggattgtagctgctaaagagaaaatgtgaaacctgtttataaagtattctgaatttgggtatgacatgtgttcttttcctttgcctgcagATTCAAAGAAACCTGCAACTCCGAATAGAAGAACAAGGCAAGTACCTGCAAATGATGTTCGAGAAGCAAAACTCTGGTCTTACCAAAGGGACAGCCTCAA---
||| || | || | | | |||| || | || || | | | || ||| ||| | | | | | ||||| ||| | ||||||||||||| || || | ||||||||||||||||| | |||||| || |||||||| ||||||||| | | | | || | || |
--------------------------------gttaattgt-ctgaggcatcccacttgtttctcttgtgctgatcatat----ctttttcatagg----tctaataccgttctt--ctccttcccttttttttttctgtaagATTCAAAGAAATCTACAGTTGCGAATAGAAGAACAAGGAAGGTACCTCCAGATGATGTTTGAGAAGCAA---TGTAAACCTGGAAATGAAACGTTCAAGGCAC
upper sequence: AT4G28610.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA03G32350.1 (Glycine max), 3'ss of exon 8
gtatgttcataaaggcattgccattagctttggttttttatacttatgtgtttggattgtagctgctaaagagaaaatgtgaaacctgtttataaagtattctgaatttgggtatgacat-gtgttcttttcctttgcctgc-agATTCAAAGAAACCTGCAACTCCGAATAGAAGAACAAGGCAAGTACCTGCAAATGATGTTCGAGAAGCAA---AACTCTGGTCTTACCAAAGGGACAGCCTCAA
| ||| || | | | | | || |||| | | || | | | ||| | || ||| | ||| || ||||||||||||| || || | ||||||||||||||||| | |||||| || |||||||| |||||||| || |||| || | | | || |
-----------------------------------------atgcatgaaatttccaaggcacgcccacttgtctcttatggttgttgttcct----tttttcatggtatgatctgatacagttctctcctattttctatgttagATTCAAAGAAATCTACAGTTGCGAATAGAAGAACAAGGAAGGTACCTTCAGATGATGTTTGAGAAGCAGTGCAAACCTGGCATTGAAACATTTAAGGCAT---
upper sequence: AT4G28610.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA10G04540.1 (Glycine max), 3'ss of exon 8
gtatgttcataaaggcattgccattagctttggttttttatacttatgtgtttggattgtagctgctaaagagaaaatgtgaaacctgtttataaagtattctgaatttgggtatgacatgtgttcttttcctttgcctgcagATTCAAAGAAACCTGCAACTCCGAATAGAAGAACAAGGCAAGTACCTGCAAATGATGTTCGAGAAGCAAAACTCTGGTCTTACCAAAGGGACAGCCTCAA
|||| || | | | | | |||| || || | || || | | | || ||| ||| | | | | | | ||| | || | |||||||||||||||| || | ||||||||||||||||| | | ||| || |||||||| |||||||||
-------------------------------ggttaattgt-cggaggcatcccacttgtttctcttatactgatcatat----ctttttcatagg----tctaataccgttcttctccttcccttcttttttctgtc---agATTCAAAGAAACCTACAGTTGCGAATAGAAGAACAAGGTAGATGCCTCCAGATGATGTTTGAGAAGCAAT------------------------------
upper sequence: AT4G28610.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv07s0005g04120.t01 (Vitis vinifera), 3'ss of exon 7
gtatgttcataaaggcattgccattagctttggttttttatacttatgtgtttggattgtagctgctaaagagaaaatgtgaaacctgtttataaagtattctgaatttgggtatgacatgtgttcttttcctttgcctgcagATTCAAAGAAACCTGCAACTCCGAATAGAAGAACAAGGCAAGTACCTGCAAATGATGTTCGAGAAGCAA---AACTCTGGTCTTACCAAAGGGACAGCCTCAA
|| || | || || || | ||| | ||| | | | || | | ||| | |||| | | | || || |||| || |||||| |||||||| | || || ||||||||||||||||| | ||||| ||||||||||| ||||||||| || || || || ||| || | |
--------------------------------------tacacaaagagacatgcat-atatata-taagcataaagagaattgcatattagttca-tatccatgatttttatgtaatattggtaactttca--tggtcgcagATACAAAGAAATTTACAGCTGCGAATAGAAGAACAAGGGAGATACCTCCAAATGATGTTTGAGAAGCAATGCAAATCAGGAATTGACAAGCTGAAGACAT--- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttataaagtattctgaatttgggtatgacatgtgttcttttcctttgcctgcagATTCAAAGAAACCTGCAACTCCGAATAGAAGAACAAGGCAAGTACCTGCAAATGATGTTCGAGAAGCAAAACTCTGGTCTTACCAAAGGGACAGCCTCAA
tgttcttttcctttgc CT-rich tract
aaagtatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgttcataaaggcattgccattagctttggttttttatacttatgtgtttggattgtagctgctaaagagaaaatgtgaaacctgtttataaagtattctgaatttgggtatgacatgtgttcttttcctttgcctgcagATTCAAAGAAACCTGCAACTCCGAATAGAAGAACAAGGCAAGTACCTGCAAATGATGTTCGAGAAGCAAAACTCTGGTCTTACCAAAGGGACAGCCTCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA