Sequence
atgc intronic sequence ATGC exonic sequencegtaagatacattcttccggcttgtctaacgatcaacaacacaacattgcattaaccagactgaaactcaatactcttgtggctctgcgcaagaaactcagttttttttttttttctccatgcagGTTAGTGGTTTTGCTTTTGCTGGCTATGCTGCTGGTATCGCAGCTTATCTGGCCGTTCATAATCTTCATTTCGAGATCCCAACAACTGTGGCTCAGATCC
Basic information
species | Arabidopsis thaliana |
transcript | AT3G19490.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G19490.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA10G40920.1 (Glycine max), 3'ss of exon 9
gtaagatacattcttccggcttgtctaacgatcaacaacacaacattgcattaaccagactgaaactcaatactcttgtggctctgcgcaagaaact-----cagttttttttttttttctccatgcagGTTAGTGGTTTTGCTTTTGCTGGCTATGCTGCTGGTATCGCAGCTTATCTGGCCGTTCATAATCTTCATTTCGAGATCCCAACAACTGTGGCTCAGATCC---
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-----------------------------------------------gtatttcctactct-acacataagacttatatgatgtt-tgtaagtaatttatgacagaagtcatttgtctcctttttgcagATTAGTGGCTTTGCTTTTGCAGGTTATGCTGCTGGTATCGTTGCCTATTTAGCTCTCCATAAACTCAACATCT---CCCTACCAACTCTAGCAGAGGTTCCTT
upper sequence: AT3G19490.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA20G26380.1 (Glycine max), 3'ss of exon 9
gtaagatacattcttccggcttgtctaacgatcaacaacacaacattgcattaaccagactgaaactcaatactcttgtggctctgcgcaagaaactcagttttttttttttttctccatgcagGTTAGTGGTTTTGCTTTTGCTGGCTATGCTGCTGGTATCGCAGCTTATCTGGCCGTTCATAATCTTCATTTCGAGATCCCAACAACTGTGGCTCAGATCC---
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---------gtacttacgaaaggtatttc---ctacacgaca-cataagactaattgtgttga----taaaatgtttgtg----cgtacaagtaatttatctccattttt----------gcagATTAGTGGCTTTGCTTTTGCAGGTTATGCTGCTGGTATTGTTCCATATTTAGCGCTTCATAACCTCAACATCT---CTCTACCAACTCTAGCGGAGGTTCCTT
upper sequence: AT3G19490.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv03s0180g00120.t01 (Vitis vinifera), 3'ss of exon 9
gtaagatacattcttccggcttgtctaacgatcaacaacacaacattgcattaaccagactgaaactcaatactcttgtggctctgcgcaagaaactcagttttttttttttttctccatgcagGTTAGTGGTTTTGCTTTTGCTGGCTATGCTGCTGGTATCGCAGCTTATCTGGCCGTTCATAATCTTCATTTCGAGATCCCAACAACTGTGGCTCAGATCC------
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-----gtatgtgctgcggtgctg-ctatttgatgataattcggtttta----------attaaaattggaaactttc----cttagtgaaagaaatt--gtttcctttt---------atgcagGTGAGTGGGTTTGCCTTTGCAGGCTATGCTGCTGGTATTGCTGCCTACCTAGCACTTCATAACCTCCAC------ATTTCCACAACTCTAGCTCATGTTCCTTTCTMapped 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|86084545|gb|DR380304.1|DR380304EST: TAGCCTTCATGGGGATGGAGAAAGTCGATTTCTTTTGGTATTTCCGAAAG GTTAGTGGTTTTGCTTTTGCTGGCTATGCTGCTGGTATCGCAGCTTATCTG
genomic: TAGCCTTCATGGGGATGGAGAAAGTCGATTTCTTTTGGTATTTCCGAAAGgtaagataca ... ctccatgcagGTTAGTGGTTTTGCTTTTGCTGGCTATGCTGCTGGTATCGCAGCTTATCTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atactcttgtggctctgcgcaagaaactcagttttttttttttttctccatgcagGTTAGTGGTTTTGCTTTTGCTGGCTATGCTGCTGGTATCGCAGCTTATCTGGCCGTTCATAATCTTCATTTCGAGATCCCAACAACTGTGGCTCAGATCC
ctcagttttttttttt CT-rich tract
aaactcagtttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagatacattcttccggcttgtctaacgatcaacaacacaacattgcattaaccagactgaaactcaatactcttgtggctctgcgcaagaaactcagttttttttttttttctccatgcagGTTAGTGGTTTTGCTTTTGCTGGCTATGCTGCTGGTATCGCAGCTTATCTGGCCGTTCATAATCTTCATTTCGAGATCCCAACAACTGTGGCTCAGATCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC