Sequence
atgc intronic sequence ATGC exonic sequence...accacttgtatagttgtattgttaattagacttttctatataccgaattcgccatattatcaacacaattttaaatttacatatatacatatttgtgcagGTGTGGCCTTGAAAGATGGTGACAACTGCGAATACGTTACCATATACGAAGACAAAGATGGAGACTGGATGCTCGCCGGTGATGTACCTTGGGG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G15540.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G15540.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA13G43780.1 (Glycine max), 3'ss of exon 1
---accacttgtatagttgtattgttaattagacttttctatataccgaattcgccatattatcaacacaattttaaatttacatatatacatatttgtgcagGTGTGGCCTTGAAAGATGGTGACAACTGCGAATACGTTACCATATACGAAGACAAAGATGGAGACTGGATGCTCGCCGGTGATGTACCTTGGGG
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actagcaattctaataagaaaagtttaa--aagtttaagttaatggcaaattggcaat-caacaatgacgataataatgttttgttttaaaaaatgttgacagGCGAAGCGTTGAAGGATGCGGAGAATGCTGAACACGTTCCCATATACGAGGACAAAGATGGTGACTGGATGCTCGTTGGAGATGTCCCTTGGGA
upper sequence: AT3G15540.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA15G01560.1 (Glycine max), 3'ss of exon 1
-accacttgtatagttgtattgttaattagacttttctatataccgaattcgccat-attatcaacacaattttaaatttacatatatacatatttgtgcagGTGTGGCCTTGAAAGATGGTGACAACTGCGAATACGTTACCATATACGAAGACAAAGATGGAGACTGGATGCTCGCCGGTGATGTACCTTGGGG
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atcaaaatctaaaaccaaaatatc--tctacctagcctcaagaaattattggcaatcaacaatagcgataattaatattcttgtttaaataaatgttgacagGCTCAGCGTTGAAGGATGAGGAGAATGTTGAACAAGTTCCCATATACGAGGACAAAGATGGTGACTGGATGCTCGTTGGAGATGTTCCTTGGGAMapped 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|125305802|gb|EL319887.1|EL319887EST: TGATGATCTAGCCTTTGCTCTTGATAAGCTCTTCGGTTTCCGTGGCATCG GTGTGGCCTTAGAAAGATGGTGACAACTGCGAATACGTT
genomic: TGATGATCTAGCCTTTGCTCTTGATAAGCTCTTCGGTTTCCGTGGCATCGgttagtaaca ... atttgtgcagGTGTGGCCTT-GAAAGATGGTGACAACTGCGAATACGTT
EST:
gi|19876757|gb|AU237588.1|AU237588EST: TGATGATCTAGCCTTTGCTCTTGATAAGCTCTTCGGTTTCCGTGGCATCG GTGTGGCCTTGAAAGATGGTGACNACTGCGAATACGTTACCATATACNAAG
genomic: TGATGATCTAGCCTTTGCTCTTGATAAGCTCTTCGGTTTCCGTGGCATCGgttagtaaca ... atttgtgcagGTGTGGCCTTGAAAGATGGTGACAACTGCGAATACGTTACCATATACGAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattcgccatattatcaacacaattttaaatttacatatatacatatttgtgcagGTGTGGCCTTGAAAGATGGTGACAACTGCGAATACGTTACCATATACGAAGACAAAGATGGAGACTGGATGCTCGCCGGTGATGTACCTTGGGG
atattatcaacacaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
accacttgtatagttgtattgttaattagacttttctatataccgaattcgccatattatcaacacaattttaaatttacatatatacatatttgtgcagGTGTGGCCTTGAAAGATGGTGACAACTGCGAATACGTTACCATATACGAAGACAAAGATGGAGACTGGATGCTCGCCGGTGATGTACCTTGGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caacaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acatata