Sequence
atgc intronic sequence ATGC exonic sequencegtaatgtaatctatgattatccacatctgtatttcttagctttgaatctcattaccaacaaactatattttctgtgtagTTGCCCAAAGAGCTGCAAGAATAGGTTTAGAGGTTGTCATTGTGCCAAAAGTCAGTGTCGAAGCCGCCAGTGTCCATGCTTTGCTGCAGATCGGGAATGT
Basic information
species | Arabidopsis thaliana |
transcript | AT2G23380.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G23380.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: LOC_Os06g16390.1 (Oryza sativa), 3'ss of exon 11
-------------------gtaatgtaatc-tatg-attatccacatctgtatttcttagctttgaatctcattaccaacaaactatattttctgtgtagTTGCCCAAAGAGCTGCAAGAATAGGTTTAGAGGTTGTCATTGTGCCAAAAGTCAGTGTCGAAGCCGCCAGTGTCCATGCTTTGCTGCAGATCGGGAATGT
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ataattttaattggaataaatgatgcaaacacatggagtgcaaatgtttgctgtccgcatcctgctgatgcaagttgaagtaatcctttctgcgttgcagGTGCCCGAAAATGTGCAAGAATCGCTTCCGAGGTTGCCATTGCGCAAAGAGTCAGTGTCGCAGCCGGCAGTGTCCATGCTTTGCTGCTGACAGGGAATGT
upper sequence: AT2G23380.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA11G05760.1 (Glycine max), 3'ss of exon 13
-----------------gtaatgta---atctatgattatccacatctg-tatttcttagctttgaatctcattaccaacaaactatattttctgtgtagTTGCCCAAAGAGCTGCAAGAATAGGTTTAGAGGTTGTCATTGTGCCAAAAGTCAGTGTCGAAGCCGCCAGTGTCCATGCTTTGCTGCAGATCGGGAATGT
|| | | | || | | |||| || ||| | | ||| || | ||| | | || ||||| ||||||||||||||| | ||| | || ||||||||||| || ||||| || ||||||| || |||||||| |||||||||||| ||||||||
tacacggatattttattgtgacttgcctacctgacagcacatgcatccaacatccgttaattcctgtgatgatttcctttttcccccttttcatatcaagATGCCCCAAGAGCTGCAAGAATCGATTTCGTGGCTGTCATTGTGCTAAGAGTCAATGCAGAAGCCGTCAATGTCCATGTTTTGCTGCAGATAGGGAATGT
upper sequence: AT2G23380.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA01G39490.1 (Glycine max), 3'ss of exon 13
---------------gtaatgtaatcta---tgattatcc-acatctgtattt-cttagctttgaatc-tcattaccaacaaactatattttctgtgtagTTGCCCAAAGAGCTGCAAGAATAGGTTTAGAGGTTGTCATTGTGCCAAAAGTCAGTGTCGAAGCCGCCAGTGTCCATGCTTTGCTGCAGATCGGGAATGT
|| | || | || || | ||| | || | | | | | | | ||| | | ||| | | || ||||| ||||||||||||||| | ||| | || ||||||||||| || ||||| || |||| || || |||||||| |||||||||||| ||||||||
ttacagtttacacagatattttattgcgacttgcctacctgacagccccatgcacccaacatccagtaatgatttctttttttccccttttcatatcaagATGCCCCAAGAGCTGCAAGAATCGATTTCGTGGCTGTCATTGTGCTAAGAGTCAATGCAGAAGTCGTCAATGTCCATGTTTTGCTGCAGATAGGGAATGT
upper sequence: AT2G23380.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv07s0031g00320.t01 (Vitis vinifera), 3'ss of exon 9
-----------------gtaatgtaatctatgattatccacatctgtatttcttagctttga-atctcattaccaacaaactatattttct---gtgtagTTGCCCAAAGAGCTGCAAGAATAGGTTTAGAGGTTGTCATTGTGCCAAAAGTCAGTGTCGAAGCCGCCAGTGTCCATGCTTTGCTGCAGATCGGGAATGT
|| ||| | || || | | | || | || || | | || ||| | | || ||| | ||| ||||| ||||| ||||||||| | ||||||||||| |||||||||||||||||||| ||||| || || |||||||||||||| ||||| ||||||||
caagtctctaatttgagatattgtggttcattgttctagaggtgatcatgttatattaatgctgtgagaatagtctgaaatttttttctctctcatctagATGCCCTAAGAGTTGCAAGAATCGATTTAGAGGTTGCCATTGTGCCAAAAGTCAGTGCCGAAGTCGTCAATGTCCATGCTTTGCGGCAGACAGGGAATGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atctgtatttcttagctttgaatctcattaccaacaaactatattttctgtgtagTTGCCCAAAGAGCTGCAAGAATAGGTTTAGAGGTTGTCATTGTGCCAAAAGTCAGTGTCGAAGCCGCCAGTGTCCATGCTTTGCTGCAGATCGGGAATGT
tattttct CT-rich tract
aacaaactatatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgtaatctatgattatccacatctgtatttcttagctttgaatctcattaccaacaaactatattttctgtgtagTTGCCCAAAGAGCTGCAAGAATAGGTTTAGAGGTTGTCATTGTGCCAAAAGTCAGTGTCGAAGCCGCCAGTGTCCATGCTTTGCTGCAGATCGGGAATGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT