Sequence
atgc intronic sequence ATGC exonic sequencegtaatcttcgccgtttatatccttacattgtttcttctctgagtcatattctgatcatctatcgattttcctatgaagCAATTGGTGATTTATGAAACATCTGCATCAGAGCTTGATATCATTCGAGACATATCCCGTACTTTCCCATCACATGTTTTCTTTCAGAAGAGACATGGAC
Basic information
species | Arabidopsis thaliana |
transcript | AT3G02460.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G02460.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: LOC_Os08g31840.2 (Oryza sativa), 3'ss of exon 3
---------------------------------------------------------------------------------------------gtaatcttcgccgtttatatccttacattgtttcttctctgagtcatattctgat-catctatcgattttcctatgaagCAATTGGTGATTTATGAAACATCTGCATCAGAGCTTGATATCATTCGAGACATATCCCGTACTTTCCCATCACATGTTTTCTTTCAGAAGAGACATGGAC
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gtacctataacaattgtgaaagaactgcttgccctgatttttgttgaatgttccctattattttttaactttctgttgtcttagtagttatttctaaattatcaggatattgtcttaagagtcatacatatcttgtcaacattattacatttctatactattttttggacagACACTGGTCATATACGAGACATCTGCATCAGAATTGGAAATAATTCGTGACATATCACGTACTTTTCCATCACATATTTTCTTCCAACAGAGACATGGTC
upper sequence: AT3G02460.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA19G05360.1 (Glycine max), 3'ss of exon 3
--------------------------gtaatcttcgccgtttatatccttacattgtttcttctctgagtcatattctgatcatctatcgattttcctatgaagCAATTGGTGATTTATGAAACATCTGCATCAGAGCTTGATATCATTCGAGACATATCCCGTACTTTCCCATCACATGTTTTCTTTCAGAAGAGACATGGAC
| ||||| | ||||| || ||| | | | |||| | ||| | || | | || ||||| | || || ||||| |||||||| || || || ||||| |||||||| || || || || ||||| |||||||| |||||||| ||||||||||||
tgaggtttcctcctttactttttgaaattatctt-gaggtttactaccctactgttccatgttttggagtt-tgcattgactagacatta--tacctattgcagCAACTAGTCATATATGAGACATCTGCCTCTGAACTGGATATAATTCGAGATATTTCTCGAACCTTCCCTTCACATGTATTCTTTCAACAGAGACATGGAC
upper sequence: AT3G02460.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv14s0083g00540.t01 (Vitis vinifera), 3'ss of exon 3
-----------------gtaatc-ttcgccgttta-----tatccttacattgtttcttctctgagtcatattctgatcatctatcgattttcctatgaagCAATTGGTGATTTATGAAACATCTGCATCAGAGCTTGATATCATTCGAGACATATCCCGTACTTTCCCATCACATGTTTTCTTTCAGAAGAGACATGGAC
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tttttcgtagatttctgatgatcctttgatatttgggagttcctttcagatagattctcttcatattcttattgtgctgatg-aaaaatgtacttgtccagCAACTGGTAATATACGAGACATCTGCTTCAGAATTGGATATAATTCGAGATATTTCTCGTACCTTCCCATCACATGTTTTCTTCCAGCAGAGACATGGAC
upper sequence: AT3G02460.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: PP1S263_22V6.1 (Physcomitrella patens), 3'ss of exon 3
-------------------gtaatcttcgccgtttatatcctt--acattgtttcttctctgagtcatattctgatcatctatcgattttcc-tatgaagCAATTGGTGATTTATGAAACATCTGCATCAGAGCTTGATATCATTCGAGACATATCCCGTACTTTCCCATCACATGTTTTCTTTCAGAAGAGACATGGAC
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catttgtgtcctgaagtttacaatggggtacggaggaatctttgaaaacaacgtcatggatgacacggcttgtgttcacaagtatctcttggatttgcagCAATTGGTGCTTTATGAAACTTCTGCTGCAGAACTGGATATAATAAGAGACATCTCGAGAACTTTCCCATCGCATGTTTTCTTCCAGCAAAGACATGGGCMapped 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|125327193|gb|EL341273.1|EL341273EST: CTTATGAATCCTGGTGTTTATGAG CTAATTGGTGATTTATGAAACATCTGCATCAGAGCTTGATATCATTCGAGA
genomic: CTTATGAATCCTGGTGTTTATGAGgtaatcttcg ... tcctatgaagC-AATTGGTGATTTATGAAACATCTGCATCAGAGCTTGATATCATTCGAGA
EST:
gi|125247503|gb|EL261588.1|EL261588EST: CTTATGAATCCTGGTGTTTATGAG CAATTGGTGATTTATGAAACATCTGCATCAGAGCTTGATATCATTCGAGAC
genomic: CTTATGAATCCTGGTGTTTATGAGgtaatcttcg ... tcctatgaagCAATTGGTGATTTATGAAACATCTGCATCAGAGCTTGATATCATTCGAGAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacattgtttcttctctgagtcatattctgatcatctatcgattttcctatgaagCAATTGGTGATTTATGAAACATCTGCATCAGAGCTTGATATCATTCGAGACATATCCCGTACTTTCCCATCACATGTTTTCTTTCAGAAGAGACATGGAC
ttttcctat CT-rich tract
tcatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatcttcgccgtttatatccttacattgtttcttctctgagtcatattctgatcatctatcgattttcctatgaagCAATTGGTGATTTATGAAACATCTGCATCAGAGCTTGATATCATTCGAGACATATCCCGTACTTTCCCATCACATGTTTTCTTTCAGAAGAGACATGGAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA