Sequence
atgc intronic sequence ATGC exonic sequencegtgagttgtgtctctctgcattattttgttgcttaacgctgttttgtttttatcactcctcattttcatgtgtgcgtgcttctttttttcttagGTTCGTGGTCTTGAGTTTAATGCTATCAGCTCAAATCTACTTGCTTCTGGGGCTGATGATGGTGAAATTTGCATTTGGGACTTATTAAAGCCTTCAGAGC
Basic information
species | Arabidopsis thaliana |
transcript | AT3G63460.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G63460.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA12G01290.1 (Glycine max), 3'ss of exon 2
-----gtgagttgtgtctctctgcattattttgttg---cttaacgctgttttgtttttatcactcctcatt------ttcatgtgtg-------cgtgcttctttttttcttagGTTCGTGGTCTTGAGTTTAATGCTATCAGCTCAAATCTACTTGCTTCTGGGGCTGATGATGGTGAAATTTGCATTTGGGACTTATTAAAGCCTTCAGAGC
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gtaagttttgctttgcttttataagccaacctgttgacttttaattgttctttgttcttgaccatatatattgtttgctttatttaaaatcctatcttatatttttatgtttcagGTTCGTGGTCTTGAGTTTAATGCCATTGCACCAAATCTTCTTGCATCTGGGGCTGAGGATGGTGAAATTTGCATATGGGATTTGGTCAATCCTTCAGAAC
upper sequence: AT3G63460.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA09G36050.2 (Glycine max), 3'ss of exon 2
-----gtgagttgtgtctctctgcattattttgttg---cttaacgctgttt---tgtttttatcactc-ctcattttca---tgtgtgcgtgcttctttttttcttagGTTCGTGGTCTTGAGTTTAATGCTATCAGCTCAAATCTACTTGCTTCTGGGGCTGATGATGGTGAAATTTGCATTTGGGACTTATTAAAGCCTTCAGAGC
| | | || | | | | ||||| |||| | || | | ||| | || | ||| | | | || || || | | |||||||||||||||||||||||| || ||||||| ||||| ||||||||||| ||||||||||||||||| ||||| || | || |||||||| |
gtaagttctgctttgcttttataagccaaactgttgagttttaattgttcttgaccatatatattgtttgcttaatttaaaatcctatcttatatttttcttgtttcagGTTCGTGGTCTTGAGTTTAATGTCATTGCACCAAATCTTCTTGCATCTGGGGCTGAGGATGGTGAAATTTGCATATGGGATTTGGTCAATCCTTCAGAAC
upper sequence: AT3G63460.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv13s0158g00140.t01 (Vitis vinifera), 3'ss of exon 2
gtgagttgtgtctc----tctgcatt-attttgttgcttaacgctgttttgtttttatcactcc-tcattttcatgtgtgcgtgcttctttttttctt----------------agGTTCGTGGTCTTGAGTTTAATGCTATCAGCTCAAATCTACTTGCTTCTGGGGCTGATGATGGTGAAATTTGCATTTGGGACTTATTAAAGCCTTCAGAGC
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gtaagttttcctccacatttttcatccgttttgggtcttcttgatgtcgggcatttgggacggtattgggtgcttatttgaattttttttttttccctttaaattctaaaattcagGTTCGTGGTCTTGAATTTAATGCAATTGCACCAAACCTACTTGCTTCTGGAGCTGATGAAGGCGAGATTTGCATTTGGGATTTGGCAGCACCTGCAGAACMapped 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|116440744|gb|EG483336.1|EG483336EST: AGCCCAGCGAAAATGCACTCGTTGGCCATCTTTCAGTTCACAAAGGCCCT GTTCGTGGTCTTGAGTTTAATGCTATCAGCTCAAATCTACTTGCTTCTGGG
genomic: AGCCCAGCGAAAATGCACTCGTTGGCCATCTTTCAGTTCACAAAGGCCCTgtgagttgtg ... tttttcttagGTTCGTGGTCTTGAGTTTAATGCTATCAGCTCAAATCTACTTGCTTCTGGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttttgtttttatcactcctcattttcatgtgtgcgtgcttctttttttcttagGTTCGTGGTCTTGAGTTTAATGCTATCAGCTCAAATCTACTTGCTTCTGGGGCTGATGATGGTGAAATTTGCATTTGGGACTTATTAAAGCCTTCAGAGC
cgtgcttctttttttc CT-rich tract
ttctttttttctta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagttgtgtctctctgcattattttgttgcttaacgctgttttgtttttatcactcctcattttcatgtgtgcgtgcttctttttttcttagGTTCGTGGTCTTGAGTTTAATGCTATCAGCTCAAATCTACTTGCTTCTGGGGCTGATGATGGTGAAATTTGCATTTGGGACTTATTAAAGCCTTCAGAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT