Sequence
atgc intronic sequence ATGC exonic sequencegtccatgtctactcctcagctatttcttcatattacttgttttttatacagcgtcatgattttgttttgttgttttgtctctttctttttttcctccattagGCTCTTGCTAAACTCGTAGCAGTTTGCGGTCCCTATCACAGAATGACAGCCGGAGCTTACAGTTTACTTGCTGTGGTTCTATATCACACTGGTGACTTTA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G01320.2 |
intron # | 17 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G01320.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: LOC_Os07g23990.1 (Oryza sativa), 3'ss of exon 15
gtccatgtctactcctcagctatttcttcatattacttgttttttatacagcgtcatgattttgttttgttgttttgtctctttctttttttcctccattagGCTCTTGCTAAACTCGTAGCAGTTTGCGGTCCCTATCACAGAATGACAGCCGGAGCTTACAGTTTACTTGCTGTGGTTCTATATCACACTGGTGACTTTA
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---------------gtatcctctttcacaaaacagtctatctttttgaacatttttggatgccatttgttttttaatcactattccaatggatgaatgcagGCTCTTGCTAAACTCATAACAGTTTGTGGTCCCTATCATCGAATGACAGCTGGAGCTTATAGTCTGCTAGCTGTTGTATTGTATCACACTGGTGATTTTA
upper sequence: AT1G01320.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: GLYMA16G02770.1 (Glycine max), 3'ss of exon 17
--gtccatgtcta---ctcctcagct--atttcttcatatt----acttgttttttatacagcgtcatgattttgttt------tgttgttttgtctct-ttctttttttcctccattagGCTCTTGCTAAACTCGTAGCAGTTTGCGGTCCCTATCACAGAATGACAGCCGGAGCTTACAGTTTACTTGCTGTGGTTCTATATCACACTGGTGACTTTA
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gtatctacgtccagaaccctttgtttggaaatcttcaaagtgtcgacaaggtttttcaacagtctacacctttcatttcagaattgtcgtttgatatctgctataattcgttggtgacagGCTCTTGCTAAGCTGGTAGCAGTTTGTGGTCCCTATCATCGGATGACAGCGGGAGCCTACAGCCTCCTTGCTGTAGTTTTATATCATACTGGAGACTTCA
upper sequence: AT1G01320.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: GLYMA07G06160.1 (Glycine max), 3'ss of exon 17
--gtccatgtcta---ctcctcagct--atttcttcatatt----acttgttttttatacagcgtcatgattttgtttt---gttgttttgt--ctctttctttttttcctccat--tagGCTCTTGCTAAACTCGTAGCAGTTTGCGGTCCCTATCACAGAATGACAGCCGGAGCTTACAGTTTACTTGCTGTGGTTCTATATCACACTGGTGACTTTA
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gtatctacatccagaaccctttgtttggaaatcttcaaattgtggacaaggtttttcaacagtcaacacatttcatttcagaattgttgtgtgatatctgctataattcgttggtgacagGCTCTTGCTAAGCTGGTAGCAGTTTGTGGTCCCTATCATCGGATGACAGCGGGAGCCTACAGCCTCCTTGCTGTAGTTTTATATCATACTGGAGATTTCAMapped 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|124986469|gb|EL058989.1|EL058989EST: ATGGAACGAAG GCTCTTGCTAAACTCGTAGCAGTTTGCGGTCCCTATCACAGAATGACAGCC
genomic: ATGGAACGAAGgtccatgtct ... cctccattagGCTCTTGCTAAACTCGTAGCAGTTTGCGGTCCCTATCACAGAATGACAGCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acagcgtcatgattttgttttgttgttttgtctctttctttttttcctccattagGCTCTTGCTAAACTCGTAGCAGTTTGCGGTCCCTATCACAGAATGACAGCCGGAGCTTACAGTTTACTTGCTGTGGTTCTATATCACACTGGTGACTTTA
ttttgttttgttgttt CT-rich tract
tttcttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtccatgtctactcctcagctatttcttcatattacttgttttttatacagcgtcatgattttgttttgttgttttgtctctttctttttttcctccattagGCTCTTGCTAAACTCGTAGCAGTTTGCGGTCCCTATCACAGAATGACAGCCGGAGCTTACAGTTTACTTGCTGTGGTTCTATATCACACTGGTGACTTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT