Sequence
atgc intronic sequence ATGC exonic sequencegtaaactcttaaccacaattcatctggttttctacatttttgtaagatacaaaagtaagataaattttgagggtctttttttgtttctgtccacagGAATTGAATCCTTCTCAAAACTGGGAGATTCCATATATTTTCAAGAAGATGGTGCAACTCCAGCTCTTTATGTCACCCAATATATATCAAGCTCACTTGA
Basic information
species | Arabidopsis thaliana |
transcript | AT5G12950.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G12950.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA12G05970.1 (Glycine max), 3'ss of exon 13
---------------------gtaaactcttaaccacaattcatctggttttctacatttttgtaagatacaaaagtaagataaatt-ttgagggtctttttttgtttctgtccacagGAATTGAATCCTTCTCAAAACTGGGAGATTCCATATATTTTCAAGAAGATGGTGCAACTCCAGCTCTTTATGTCACCCAATATATATCAAGCTCACTTGA
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gtgtgcatttgttttgtttatatactttccaaacagcaacaaactgctcaattttcattgtcaactca-actatactatcatcagtcattcattctcaatttctttttctgtttatagGAATTGAATCATTCTCAAAACTGGGAGATTCTGTCTATTTTGAAGACAAAGGCAAAGATCCTACACTTTATATCATTCAGTACATATCAAGCTCGTTTAA
upper sequence: AT5G12950.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA15G03770.1 (Glycine max), 3'ss of exon 8
--------gtaaactcttaaccacaattcatctggttttctacatttttgtaagatacaaaa--------gtaagataaattttgagggtc---tttttttgtttctgtccac-agGAATTGAATCCTTCTCAAAACTGGGAGATTCCATATATTTTCAAGAAGATGGTGCAACTCCAGCTCTTTATGTCACCCAATATATATCAAGCTCACTTGA
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gtgagcctatgttatgtccatcatactttataaatggcatcaaagtttcacactacaccaaatcatttctgtactccgtactcaaatgttctcatttttctttccctgtttattagGAATTGAATCATTCTCAAAGCTGGGAGATTCTATCTATTTTGAAGAGCAAGGGGAAAATCCTACTCTTTACATCATCCAATACATATCAAGCTTATTTAA
upper sequence: AT5G12950.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA11G14000.1 (Glycine max), 3'ss of exon 9
-----------------gtaaactcttaaccacaattcatctggttttctacatttttgtaagatacaaaagtaagataaattttgagggtctttttttgt-------ttctgtccacagGAATTGAATCCTTCTCAAAACTGGGAGATTCCATATATTTTCAAGAAGATGGTGCAACTCCAGCTCTTTATGTCACCCAATATATATCAAGCTCACTTGA
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gtgtgcatttattttgtttagatacttt-ccaaactgcaacaaactgc--acaattttcttggtcaactcaactatactcttatcggtcatttattctaaaaaaaatatttggtttatagGAATTGAATCGTTCTCAAAGCTGGGAGATTCTATCTATTTTGAAGAGGAAGGCAAAGATCCTACACTTTACATCATTCAGTACATATCAAGCTCGTTTAAMapped 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|86063712|gb|DR359469.1|DR359469EST: TCACGGTTGGGGAACACCTTATGATTCCTTCTGGTGTTGCTATGGCACTG GAATTGAATCCTTCTCAAAACTGGGAGATTCCATATATTTTCAAGAAGATG
genomic: TCACGGTTGGGGAACACCTTATGATTCCTTCTGGTGTTGCTATGGCACTGgtaaactctt ... ctgtccacagGAATTGAATCCTTCTCAAAACTGGGAGATTCCATATATTTTCAAGAAGATG
EST:
gi|86063711|gb|DR359468.1|DR359468EST: TCACGGTTGGGGAACACCTTATGATTCCTTCTGGTGTTGCTATGGCACTG GAATTGAATCCTTCTCAAAACTGGGAGATTCCATATATTTTCAAGAAGATG
genomic: TCACGGTTGGGGAACACCTTATGATTCCTTCTGGTGTTGCTATGGCACTGgtaaactctt ... ctgtccacagGAATTGAATCCTTCTCAAAACTGGGAGATTCCATATATTTTCAAGAAGATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaagatacaaaagtaagataaattttgagggtctttttttgtttctgtccacagGAATTGAATCCTTCTCAAAACTGGGAGATTCCATATATTTTCAAGAAGATGGTGCAACTCCAGCTCTTTATGTCACCCAATATATATCAAGCTCACTTGA
tctttttttgtttctg CT-rich tract
atacaaaagtaagata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaactcttaaccacaattcatctggttttctacatttttgtaagatacaaaagtaagataaattttgagggtctttttttgtttctgtccacagGAATTGAATCCTTCTCAAAACTGGGAGATTCCATATATTTTCAAGAAGATGGTGCAACTCCAGCTCTTTATGTCACCCAATATATATCAAGCTCACTTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA