Sequence
atgc intronic sequence ATGC exonic sequencegtaaaaatctttgacattccataggaaatggttggtattggagaagaattaggtttttgtgaggttaaattgtgttttatggcgcagGAGTGTAAGCAGTTGGGGTTTGACACTATTGAGCTGAATGCAAATTTGCTTGAAGTTCCTGAGGAAACTCTTCTACGATATGTACGTTTGATTAAGAACG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G21320.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G21320.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA08G06660.1 (Glycine max), 3'ss of exon 2
------------------------gtaaaaatctttgacattccataggaaatggttggtattggagaagaattaggtttttgtgaggttaaattgtgtttta------tggcgcagGAGTGTAAGCAGTTGGGGTTTGACACTATTGAGCTGAATGCAAATTTGCTTGAAGTTCCTGAGGAAACTCTTCTACGATATGTACGTTTGATTAAGAACG
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gtctctctctgcccacctgattcaatattaatgttagtactactata--atactattattttgtgatgaattttggtttctgatttggttgcgtggttttttgtcctgttgtcatagGAATGCAAGCAGTTGGGGTTTGACACAATTGAGCTCAATGTGGGATCGCTTGAGATTCCTGAAGAAACCTTTTTGAGATTTGTCCGCTTGGTCAAAAGTG
upper sequence: AT4G21320.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA07G30630.1 (Glycine max), 3'ss of exon 2
---------gtaaaaatctttgac---attccataggaaatggttggtattggagaagaattaggtttttgtgaggttaaattgtgttttatggcg---cagGAGTGTAAGCAGTTGGGGTTTGACACTATTGAGCTGAATGCAAATTTGCTTGAAGTTCCTGAGGAAACTCTTCTACGATATGTACGTTTGATTAAGAACG
||| | || | | || || | | | | || | | | | | | || | |||| || || |||| || | ||||| | |||||||||||||||||||| |||||||| |||| | || |||||| ||||||| || || || | ||| | | || ||| | || | |
gacatcgtcgtatgattcatgtatccgatctcacctaatgagataaggctttgttattatt--gttgttgatttggttgcatggttttttgtgctgttacagGAATACAAGCAGTTGGGGTTTGACACAATTGAGCTCAATGTGAGTTCGCTTGAGATTCCTGAAGAGACCTTTTTGAGATTTATCCGCTTGGTCAAAAGTG
upper sequence: AT4G21320.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv00s1274g00010.t01 (Vitis vinifera), 3'ss of exon 1
------gtaaaaatctttgac-attccataggaaatggttggtattggagaagaattaggtttttgtgaggttaaattgtgttttatggcgcagGAGTGTAAGCAGTTGGGGTTTGACACTATTGAGCTGAATGCAAATTTGCTTGAAGTTCCTGAGGAAACTCTTCTACGATATGTACGTTTGATTAAGAACG
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gtgggcacaaaaatcattaattggtttttcttcaattatttat-ttgagcactaattcaattttttc---------ttatatgtttcgtcgcagGAGTGTAAGCATTTGGGATTTGACACAATCGAGCTAAATGTGGGTTCACTAGGAATTCCAGAAGAAACTCTTTTGAGATTTGTGCGTTTGATTAAGAGTGMapped 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|19878817|gb|AU239648.1|AU239648EST: CTGAACATATGCTTCGTAGTGGTCCTTCAGCTTTCAAAGACTATGTGGAG GAGTGTAAGCAGTTGGGGTTTGACACTATTGAGCTGAATGCAAATTTGCTT
genomic: CTGAACATATGCTTCGTAGTGGTCCTTCAGCTTTCAAAGACTATGTGGAGgtaaaaatct ... tatggcgcagGAGTGTAAGCAGTTGGGGTTTGACACTATTGAGCTGAATGCAAATTTGCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggtattggagaagaattaggtttttgtgaggttaaattgtgttttatggcgcagGAGTGTAAGCAGTTGGGGTTTGACACTATTGAGCTGAATGCAAATTTGCTTGAAGTTCCTGAGGAAACTCTTCTACGATATGTACGTTTGATTAAGAACG
ttaaattgtgttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaaatctttgacattccataggaaatggttggtattggagaagaattaggtttttgtgaggttaaattgtgttttatggcgcagGAGTGTAAGCAGTTGGGGTTTGACACTATTGAGCTGAATGCAAATTTGCTTGAAGTTCCTGAGGAAACTCTTCTACGATATGTACGTTTGATTAAGAACG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC