Sequence
atgc intronic sequence ATGC exonic sequencegtatagtagtatgactcctttgattctcatataatacaaatggaaagatacatcctccagatcctcatgagactactctcgtatgtcagTTGGATACTAGAAGAATTCTGAAACGGCTTGCAAAAGAAAATCTGAAGCAGTTAGGAAGGATGGTGGCAAAACTAGCTCATGCCAATCCCATGACGGTGC
Basic information
species | Arabidopsis thaliana |
transcript | AT1G24706.1 |
intron # | 17 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G24706.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: GLYMA05G34330.1 (Glycine max), 3'ss of exon 16
-------gtatagtagtatgactcctttgattctcatataatacaaatggaaagatacatcctccagatcctcatgagactactctc-gtatgt-cagTTGGATACTAGAAGAATTCTGAAACGGCTTGCAAAAGAAAATCTGAAGCAGTTAGGAAGGATGGTGGCAAAACTAGCTCATGCCAATCCCATGACGGTGC
| | ||||| | || | | | | | | | ||| | || || || | | | || || | || ||| |||||||| |||||| | ||| |||||||||| ||||| |||||| |||||||| | || ||||||| |||||| ||||||||||||| || ||||| || |
gtgtgctgatgatctatatgaatgtttggtaccgtctgcactgaatgtttgaagcttgattctttg--tcaccctcattctcttcgctgtctgtacagTTGGACACTAGACGTATTTTGAAACGGCTGGCAAAGGAAAATTTGAAGCAGCTGGGCCGGATGGTTGCAAAATTAGCTCATGCCAACCCTATGACTGTCC
upper sequence: AT1G24706.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: GLYMA08G05320.1 (Glycine max), 3'ss of exon 13
gtatagtagtatgactcctttgattctcatataatacaaatggaaagatacatcctccagatcctcatgagactactctc----gtatgt-cagTTGGATACTAGAAGAATTCTGAAACGGCTTGCAAAAGAAAATCTGAAGCAGTTAGGAAGGATGGTGGCAAAACTAGCTCATGCCAATCCCATGACGGTGC
|| | | | | | | || || | ||| | | | || | |||| | |||| || ||| |||||||| |||||| | ||| |||||||||| ||||| |||||| |||||||| | || ||||||| ||||| ||||||||||||| || ||||| || |
gtgtgctgatgatctatatacatgtttggtaccatctgcactgaatgttttaagcttgattctgtcatactcattctcttcactgtctgtacagTTGGACACTAGACGTATTTTGAAACGGCTGGCAAAGGAAAATTTGAAGCAGCTGGGTCGGATGGTTGCAAAGTTAGCTCATGCCAACCCTATGACTGTCC
upper sequence: AT1G24706.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: Vv01s0011g06120.t01 (Vitis vinifera), 3'ss of exon 16
-----------------gtatagtagtatgactcctttgattct-catataatacaaatggaaagatacatcctccagatcctcatgagactactctcgtatgt--cagTTGGATACTAGAAGAATTCTGAAACGGCTTGCAAAAGAAAATCTGAAGCAGTTAGGAAGGATGGTGGCAAAACTAGCTCATGCCAATCCCATGACGGTGC
|| || | | | ||| || | | | | | ||| | | | | | | || || | | | | |||||||| |||||||| || ||||||||||||| || ||||| || |||||| | || ||||||| ||||||||||||||||||||||| ||||| || |
gtataatgtttttctctgt-taaggatgtcattccgttaacagtatctttgttgcaagcttggtgccataagtcttaagtgcatctgtttctgttattattgtttacagTTGGACACTAGAAGGATCTTGAAACGGCTTGCGAAGGAAAACCTAAAGCAGCTGGGTCGGATGGTAGCAAAACTAGCTCATGCCAATCCAATGACTGTAC
upper sequence: AT1G24706.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: PP1S80_87V6.1 (Physcomitrella patens), 3'ss of exon 16
------------gtatagtagtatgactcctttgattctcatataatacaaatggaaagatacatcctccagatcctcatgagactactctcgtatgtcagTTGGATACTAGAAGAATTCTGAAACGGCTTGCAAAAGAAAATCTGAAGCAGTTAGGAAGGATGGTGGCAAAACTAGCTCATGCCAATCCCATGACGGTGC
| ||| |||| | ||| || | | | | | || || | ||| | | | | | ||||||||||| || | || |||| || ||||| |||||||| ||||||||| |||| | |||||||| ||| | |||||||| ||||||||||| || |
atctgttggtgaatgcagtcgtattatgaatttatccagtttaggagtggtttaggatgtta-atggttgtgataagtaatcatgtgatttttaaaaacagTTGGATACAAGGCGTATATTGAAGCGACTTGCGAAAGAAAACCTGAAGCAGCTAGGTCGAATGGTGGCCAAAATTGCTCATGCAAATCCCATGACTGTCCMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|164170116|gb|ES020919.1|ES020919EST: GGACGATGAGCAGAATCCTTTGTTGTTGGCAGCAAGGCAAGTGGCAAAG TTGGATACTAGAAGAATTC
genomic: GGACGATGAGCAGAATCCTTTGTTGTTGGCAGCAAGGCAAGTGGCAAAGgtatagtagt ... cgtatgtcagTTGGATACTAGAAGAATTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacaaatggaaagatacatcctccagatcctcatgagactactctcgtatgtcagTTGGATACTAGAAGAATTCTGAAACGGCTTGCAAAAGAAAATCTGAAGCAGTTAGGAAGGATGGTGGCAAAACTAGCTCATGCCAATCCCATGACGGTGC
ctactctc CT-rich tract
aaagata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatagtagtatgactcctttgattctcatataatacaaatggaaagatacatcctccagatcctcatgagactactctcgtatgtcagTTGGATACTAGAAGAATTCTGAAACGGCTTGCAAAAGAAAATCTGAAGCAGTTAGGAAGGATGGTGGCAAAACTAGCTCATGCCAATCCCATGACGGTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA