Sequence
atgc intronic sequence ATGC exonic sequencegttggcttttttttatggttccatctctctattcttgactagctatttgtggtgcttatgtgacaatttttttaagttctgtatcagATGGGTATGAAAGAAGATAGTGATGAAGTCACAACCAAGACCCGTATATTGTCTCTTGAGCTTCTTCAG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G43300.2 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G43300.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA17G04890.1 (Glycine max), 3'ss of exon 11
gttggcttttttttatggttccatctctctattcttgactagctatttgtggtgcttatgtgacaatttttttaagttctgtatcagATGGGTATGAAAGAAGATAGTGATGAAGTCACAACCAAGACCCGTATATTGTCTCTTGAGCTTCTTCAG
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-----gttggttctctaactttaactatagctttgtggttaatttcttgtgaacattatat---atacttcttaatttatttgacagATGGGTATGAAGGAAGATAATGATGAAGTTACAACGAAGACGAGGATATTGTCTCTTGAGCTTCTTCAG
upper sequence: AT3G43300.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA13G17610.1 (Glycine max), 3'ss of exon 10
gttggcttttttttatggttccatctctctattcttgactagctatttgtggtgcttatgtgacaatttttttaagttctgtatcagATGGGTATGAAAGAAGATAGTGATGAAGTCACAACCAAGACCCGTATATTGTCTCTTGAGCTTCTTCAG
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gttggttctctc-----actttaacaatggcattgtggttaatttcttgtgaacattacat---atacttcttaatttatttgacagATGGGTATGAAGGAAGATAATGATGAAGTTACAACGAAGACGAGGATATTGTCGCTTGAGCTTCTTCAG
upper sequence: AT3G43300.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv11s0016g00170.t01 (Vitis vinifera), 3'ss of exon 11
---------------------gttggcttttttttatggttccatctctctattcttgacta-gctatttgtggtgcttatgtgacaatttttt-taagttctgtatcagATGGGTATGAAAGAAGATAGTGATGAAGTCACAACCAAGACCCGTATATTGTCTCTTGAGCTTCTTCAG
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gttggctttctgagtattctctccatctatcaaaagaagtattctcttcatatttttgtctgcattttctaatctgcctatatgattcctcactataacatttg---cagATGGGTATGAAGGAAGATAATGATGAAGTCACAACCAAGACACGGATTTTGTCTCTTGAGCTTCTACAGMapped 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|125003295|gb|EL075564.1|EL075564EST: TCCGTACCCTTTGCAAG ATGGGTATGAAAGAAGATAGTGATGAAGTCACAACCAAGACCCGTATATTG
genomic: TCCGTACCCTTTGCAAGgttggctttt ... tctgtatcagATGGGTATGAAAGAAGATAGTGATGAAGTCACAACCAAGACCCGTATATTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttgactagctatttgtggtgcttatgtgacaatttttttaagttctgtatcagATGGGTATGAAAGAAGATAGTGATGAAGTCACAACCAAGACCCGTATATTGTCTCTTGAGCTTCTTCAG
tcttgac putative branch site (score: 3)
acaatttttttaagtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttggcttttttttatggttccatctctctattcttgactagctatttgtggtgcttatgtgacaatttttttaagttctgtatcagATGGGTATGAAAGAAGATAGTGATGAAGTCACAACCAAGACCCGTATATTGTCTCTTGAGCTTCTTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT