Sequence
atgc intronic sequence ATGC exonic sequencegtaggtatttctaattctaatgaacattcctgtgcttgaacattctgtagttgattgatttttcttatttctgctcggtatgcttttggtagATATGGCACTTGAATCTTGTGAGGGTGGCGAGCTTTTCGACCAAATAACCAGA
Basic information
species | Arabidopsis thaliana |
transcript | AT5G04510.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G04510.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA10G34430.1 (Glycine max), 3'ss of exon 2
------------------------------------------------------------gtaggtatttctaattctaatgaacattcctgtgcttgaacattctgtagttgattgatttt--tcttatttctgctcggtatgcttttg-------gtagATATGGCACTTGAATCTTGTGAGGGTGGCGAGCTTTTCGACCAAATAACCAGA
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gtaagtattcgtaggtgtattttacctttacacttgcttatgctctgacttactcctctctgataccttttcaactctagcttttgctcaccttgtttgccaagttggtttatatttattttgacgttattttttcccctttttcttttacatcggtgaagACATGGCACTTGAATCCTGTGAAGGTGGAGAACTTTTTGATCAAATAACCAGG
upper sequence: AT5G04510.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv13s0074g00100.t01 (Vitis vinifera), 3'ss of exon 3
-----------------------------------------------------------------------------gtaggtatttctaattctaatgaacattcctgtgcttgaacattctgtagttgattgatttttcttatttc-----tgctcggtatgcttttggtagATATGGCACTTGAATCTTGTGAGGGTGGCGAGCTTTTCGACCAAATAACCAGA
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gtaggtattcttggttaaaatctggtcagaagtttaatattctccattctttctgtctccaattttcctcttgcaccatgctctctcccatgcttgttttcctttatcatatttggttatttttttacaatttgctttatcatttgacatgggtcccttctgtggattttgaagATATGGCACTTGAATCATGTGAAGGTGGAGAACTGTTTGATCAAATAACCAGGMapped 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|116381741|gb|EG424333.1|EG424333EST: TCCTGGGATCATTAAACTTTACTTCACGTTTCAAGACACATCCTCACTAT ATATGGCACTTGAATCTTGTGAGGGTGGCGAGCTTTTC
genomic: TCCTGGGATCATTAAACTTTACTTCACGTTTCAAGACACATCCTCACTATgtaggtattt ... cttttggtagATATGGCACTTGAATCTTGTGAGGGTGGCGAGCTTTTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaacattctgtagttgattgatttttcttatttctgctcggtatgcttttggtagATATGGCACTTGAATCTTGTGAGGGTGGCGAGCTTTTCGACCAAATAACCAGA
gattgat putative branch site (score: 4)
tgctttt putative PPT
attgatttttcttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggtatttctaattctaatgaacattcctgtgcttgaacattctgtagttgattgatttttcttatttctgctcggtatgcttttggtagATATGGCACTTGAATCTTGTGAGGGTGGCGAGCTTTTCGACCAAATAACCAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT