Sequence
atgc intronic sequence ATGC exonic sequencegtcagtgtttagaactagacgaaaaatataacttctataatttacaaacattttgacttatagggttaactttatcaagatttgaatttctttctctcgtgggtcttaaataagtatttgaaaatcttatcagGGAAACTTAGATGAGGCAAATCTACCTCGTAAGCGAAAGACAGACATCTGCACAATAATGTACACAAGCGGGACGACTGGAGAACCCAAAGGTGTAATCT
Basic information
species | Arabidopsis thaliana |
transcript | AT1G49430.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G49430.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA20G01060.1 (Glycine max), 3'ss of exon 8
gtcagtgtttagaactagacgaaaaatataacttctataatttacaaacattttgacttatagggttaactttatcaagatttgaatttctttctctcgtgggtcttaaataagtatttgaaaatcttatcagGGAAACTTAGATGAGGCAAATCTACCTCGTAAGCGAAAGACAGACATCTGCACAATAATGTACACAAGCGGGACGACTGGAGAACCCAAAGGTGTAATCT---
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gtaagatgttaaacttggtttgcaattg---cctatttggtgttccaaaattagga-tcatgaaccattttatatgagtattctgagatataattataacag---tttaatattt-tttcttcctttctctagGGATGTCTGGATTGGG---ATCTACCATCAAAAAAGAAGACTGACATTTGCACAATAATGTACACAAGTGGAACAACTGGAGATCCCAAAGGTGTCGTTATTA
upper sequence: AT1G49430.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA07G20860.1 (Glycine max), 3'ss of exon 8
gtcagtgtttagaactagacgaaaaatataacttctataatttacaaacattttgacttatagggttaactttatcaagatttgaatttctttctctcgtgggtct-taaataagtatttgaaaatcttatcagGGAAACTTAGATGAGGCAAATCTACCTCGTAAGCGAAAGACAGACATCTGCACAATAATGTACACAAGCGGGACGACTGGAGAACCCAAAGGTGTAATCT---
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gtaagattttaaacctggttttcaaatg---cctatttgatgttcaaaa--taaggatcatgaaccattttttatgagtactttgagatattagtaaaacagtttaatatcttctcttttcttccttcctatagGGATGCCTGGATTGGG---ATCTACCATCAAAAAAGAAGAATGACATTTGCACAATAATGTACACAAGTGGAACAACTGGAGATCCCAAAGGTGTTGTTATTA
upper sequence: AT1G49430.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA11G13050.1 (Glycine max), 3'ss of exon 8
gtcagtgtttagaactagacgaaaaatataacttctataatttacaaacattttgacttatagggttaactttatcaagatttgaatttctttctctcgtgggtcttaaataagtatttgaaaatcttatcagGGAAACTTAGATGAGGCAAATCTACCTCGTAAGCGAAAGACAGACATCTGCACAATAATGTACACAAGCGGGACGACTGGAGAACCCAAAGGTGTAATCT---
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------gtaggaaccctgattcttaatttcatattgatg-tttataatca-----acagcaagagccattttgattgagtattgagagatagatttt--ttaacattgaatatatcttc----atttctccagGGAAATATCGATT---TAGACCTTCCACCGAAAAAGAAGACTAACATCTGCACAATAATGTACACAAGTGGAACAACAGGCGAACCCAAAGGCGTCATTATTA
upper sequence: AT1G49430.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv03s0063g01880.t01 (Vitis vinifera), 3'ss of exon 8
gtcagtgtttagaactagacgaaaaatataacttctataatttacaaacattttgacttatagggttaactttatcaagatttgaatttctttctctcgtgggtcttaaataagtatttgaaaatcttatcagGGAAACTTAGATGAGGCAAATCTACCTCGTAAGCGAAAGACAGACATCTGCACAATAATGTACACAAGCGGGACGACTGGAGAACCCAAAGGTGTAATCT---
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--------------------------------gtaagaaattgacatcaacaatttcttatagggctcaaactgt---aatgtgtattttggtttc------atcttatttcaattcctgtccatgttgccagGGAAGTTTGGATTGTG---AACTTCCTCCAAAACAGAAGACAGACATCTGCACGATAATGTACACCAGTGGAACAACTGGAGAACCAAAAGGAGTTGTTTTAT
upper sequence: AT1G49430.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: EFJ25426 (Selaginella moellendorffii), 3'ss of exon 8
gtcagtgtttagaactagacgaaaaatataacttctataatttacaaacattttgacttatagggttaactttatcaagatttgaatttctttctctcgtgggtcttaaataagtatttgaaaatcttatcagGGAAACTTAGATGAGGCAAATCTACCTCGTAAGCGAAAGACAGACATCTGCACAATAATGTACACAAGCGGGACGACTGGAGAACCCAAAGGTGTAATCT
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-------------------------------------------------------------------------------gtgagaatttacgtttgaagtgtcgtttcattgactaac--agcgtaaacgcagGGAAAAACGAACCCCGTGAACTTCGAGCCTCCAAAACCGGAAGATATATGCACCATCATGTACACAAGCGGCACGACCGGAGAACCCAAGGGCGTTTTGC
upper sequence: AT1G49430.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: EFJ23443 (Selaginella moellendorffii), 3'ss of exon 8
gtcagtgtttagaactagacgaaaaatataacttctataatttacaaacattttgacttatagggttaactttatcaagatttgaatttctttctctcgtgggtcttaaataagtatttgaaaatcttatcagGGAAACTTAGATGAGGCAAATCTACCTCGTAAGCGAAAGACAGACATCTGCACAATAATGTACACAAGCGGGACGACTGGAGAACCCAAAGGTGTAATCT
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-------------------------------------------------------------------------------gtgagaatttacgtgtgaagtgtcgtttcattgactaac--agcgtaaacgcagGGAAAAACGAACCCCGTGAACTTCGAGCCTCCAAAACCGGAAGATATATGCACCATCATGTACACAAGCGGCACGACCGGAGAACCCAAGGGCGTTTTGCMapped 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|47831062|gb|CK120746.1|CK120746EST: CTAAGAACCAATGTGTTTCTTTATTTTCATGGAATGAGTTCTCACTAATG GGAAACTTAGATGAGGCAAATCTACCTCGTAAGCGAAAGACAGACATCTGC
genomic: CTAAGAACCAATGTGTTTCTTTATTTTCATGGAATGAGTTCTCACTAATGgtcagtgttt ... atcttatcagGGAAACTTAGATGAGGCAAATCTACCTCGTAAGCGAAAGACAGACATCTGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatttgaatttctttctctcgtgggtcttaaataagtatttgaaaatcttatcagGGAAACTTAGATGAGGCAAATCTACCTCGTAAGCGAAAGACAGACATCTGCACAATAATGTACACAAGCGGGACGACTGGAGAACCCAAAGGTGTAATCT
tcttatc CT-rich tract
tcttaaataagtattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagtgtttagaactagacgaaaaatataacttctataatttacaaacattttgacttatagggttaactttatcaagatttgaatttctttctctcgtgggtcttaaataagtatttgaaaatcttatcagGGAAACTTAGATGAGGCAAATCTACCTCGTAAGCGAAAGACAGACATCTGCACAATAATGTACACAAGCGGGACGACTGGAGAACCCAAAGGTGTAATCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA