Sequence
atgc intronic sequence ATGC exonic sequencegtgcgtgctgttgggaatctcctaaaccattttctcacagtacttactaatttggtctctagatttgtttgagcccatgtagtaggttatcatgtaatgaaaatgattcccaggtgtttattctttccagGTGCCTTGCCTTAAGGATAACTATGCTTATATCTTGCATGACGAGGATACTGGTACAGTTGGGGTGGTTGACCCTTCTGAAGCTGAACCTATTATCGATT
Basic information
species | Arabidopsis thaliana |
transcript | AT2G31350.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G31350.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os09g34100.1 (Oryza sativa), 3'ss of exon 2
gtgcgtgctgttgggaatctcctaaaccattttctcacagtacttactaatttggtctctagatttgtttgagcccatgtagtaggttatcatgtaatgaaaatgattccca-ggtgtttattctttcc----agGTGCCTTGCCTTAAGGATAACTATGCTTATATCTTGCATGACGAGGATACTGGTACAGTTGGGGTGGTTGACCCTTCTGAAGCTGAACCTATTATCGATT
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---------------------------------cttatgct--ttccttgcttcgcataaaagggttattggggatagctacattggaattatctatagtatttgttgccaacaatgtttatgcttcttgtgtagGTACCCTGCCTTCAAGATAACTATGCTTACATCCTACATGATGTTGATACTGGAACAGTTGGAGTTGTGGACCCTTCTGAAGCAACGCCAATCATAAATG
upper sequence: AT2G31350.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G120300_T01 (Zea mays), 3'ss of exon 2
gtgcgtgctgttgggaatctcctaaaccattttctcacagtacttactaatttggt-ctctagatttgtttgagcccatgta-gtaggt-tatcatgtaatgaaaatgattcccaggtgtttattc-tttccagGTGCCTTGCCTTAAGGATAACTATGCTTATATCTTGCATGACGAGGATACTGGTACAGTTGGGGTGGTTGACCCTTCTGAAGCTGAACCTATTATCGATT
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--------------------------------atcagctgttaccatgaatttgttgctctttacataattaccctcctatatgtagatatttcttgtcattcaatcaacatct--gtcctggttcatatgcagGTACCATGCCTTCGAGATAACTATGCGTATATCCTGCATGATGTTGATACTGGAACAGTTGGAGTAGTGGATCCTTCTGAGGCTATGCCTATTATAAATG
upper sequence: AT2G31350.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA13G42070.2 (Glycine max), 3'ss of exon 2
gtgcgtgctgttgggaatctcctaaaccattt----tctcacagtact------tactaatttggtctctag--------atttgtttgagcccatgtagtaggttatcatgtaatgaaaatgattcccaggtgtttattctttccagGTGCCTTGCCTTAAGGATAACTATGCTTATATCTTGCATGACGAGGATACTGGTACAGTTGGGGTGGTTGACCCTTCTGAAGCTGAACCTATTATCGATT
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----gtgagagcaggtctcttatcagtcttttctgttttcatagtgctattggattacaattaggtcacccgtgctgataagttttctgaagaaatatgatgaaagcttaagttctgacgttattgtgttttaaattttttttgttagGTACCTTGCCTGAAGGACAATTATGCTTATCTGTTACATGATGTGGACACGGGTACAGTTGGTGTTGTTGATCCTTCTGAAGCTGTGCCTATCATAGATG
upper sequence: AT2G31350.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA15G03320.1 (Glycine max), 3'ss of exon 2
----gtgcgtgctgttgggaatctcctaaaccattttctcacagtacttactaatttggtctctagatttgtttgagcccatgtagtaggttatcatgtaatgaaaatgattcccag-gtgtttat-------tctttccagGTGCCTTGCCTTAAGGATAACTATGCTTATATCTTGCATGACGAGGATACTGGTACAGTTGGGGTGGTTGACCCTTCTGAAGCTGAACCTATTATCGATT
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gtgagagcgggtctcttattagttttcagttgctgtggtcctgttggattataaataggtcacccgtgctgataagttttctgaagaaatatgctgaaagcctaaattgtgacttattgtctttaaaaaaaaatattgttagGTACCTTGCCTGAAGGACAATTATGCATATCTGTTACATGATGTAGATACGGGTACAGTTGGTGTTGTTGATCCTTCTGAAGCTGTGCCTGTCATAGATGMapped 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|86055108|gb|DR350865.1|DR350865EST: TTTCAAAGTTCTGCAGTGTCTCCAATGTCTCATCATTGCAAATTGAACTG GTGCCTTGCCTTAAGGATAACTATGCTTATATCTTGCATGACGAGGATACT
genomic: TTTCAAAGTTCTGCAGTGTCTCCAATGTCTCCTCATTGCAAATTGAACTGgtgcgtgctg ... ttctttccagGTGCCTTGCCTTAAGGATAACTATGCTTATATCTTGCATGACGAGGATACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catgtagtaggttatcatgtaatgaaaatgattcccaggtgtttattctttccagGTGCCTTGCCTTAAGGATAACTATGCTTATATCTTGCATGACGAGGATACTGGTACAGTTGGGGTGGTTGACCCTTCTGAAGCTGAACCTATTATCGATT
tgtttattctttcc CT-rich tract
taatgaaaatgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgcgtgctgttgggaatctcctaaaccattttctcacagtacttactaatttggtctctagatttgtttgagcccatgtagtaggttatcatgtaatgaaaatgattcccaggtgtttattctttccagGTGCCTTGCCTTAAGGATAACTATGCTTATATCTTGCATGACGAGGATACTGGTACAGTTGGGGTGGTTGACCCTTCTGAAGCTGAACCTATTATCGATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA