Sequence
atgc intronic sequence ATGC exonic sequencegtaagttttgctaacatttgaattttttttttcttttttttttcctaccattttatgtaagttgtctttacaatgcatttcagGAGAATAGAGCTATTGTAGTGGATGAACCTGGAGTTACTAGGGATCGATTGTATGGTAGATCATATTGGGGTGATCAAGAGTTTGTGGTGGTAGACACCG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G12080.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G12080.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G302233_T01 (Zea mays), 3'ss of exon 3
-----------gtaagttttgctaacatttg-aattttttttttcttttttttttcctaccattttatgtaagttgtct---ttacaatgcatttcagGAGAATAGAGCTATTGTAGTGGATGAACCTGGAGTTACTAGGGATCGATTGTATGGTAGATCATATTGGGGTGATCAAGAGTTTGTGGTGGTAGACACCG
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gtatgtcaatcatcactcagggctgtgcctgcaatgttcatcaccatacaattttcagaccagaatgcagaaatgaaccgagttatgatttcttgcagGGCAATAGGGCTATAGTTGTTGATGAACCTGGTGTGACAAGGGACCGCTTATATGGACGATCTTATTGGGGTGATCATGAGTTTATGGTTATTGATACTG
upper sequence: AT3G12080.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA12G06150.1 (Glycine max), 3'ss of exon 3
--------------------------------------------------------------------------gtaagttttgctaacatttgaattttttttttcttttttttttcctaccattttatgtaagttgtctttacaatgc----atttcagGAGAATAGAGCTATTGTAGTGGATGAACCTGGAGTTACTAGGGATCGATTGTATGGTAGATCATATTGGGGTGATCAAGAGTTTGTGGTGGTAGACACCG
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gtattgaatatttcttcttgctttaattttcctccttatatgttctcatgttttagggaaatacagttcgaaatttcaacgtgtctaaaatctgaatgttgaaattgatctattatgatagttaccttacctacctctccttactactgctcaaattgtagGGAAACAGGGCAATTGTGGTGGATGAACCTGGGGTCACCAGGGATCGTTTGTATGGTCGATCGTATTGGGGAGAGCATGAATTCATGGTAGTCGACACAGMapped 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|86068529|gb|DR364286.1|DR364286EST: TTGGAAGGCCTAATGTCGGAAAATCAGCATTGTTCAACCGCCTTGTTGGG GAGAATAGAGCTATTGTAGTGGATGAACCTGGAGTTACTAGGGATCGATTG
genomic: TTGGAAGGCCTAATGTCGGAAAATCAGCATTGTTCAACCGCCTTGTTGGGgtaagttttg ... tgcatttcagGAGAATAGAGCTATTGTAGTGGATGAACCTGGAGTTACTAGGGATCGATTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttcttttttttttcctaccattttatgtaagttgtctttacaatgcatttcagGAGAATAGAGCTATTGTAGTGGATGAACCTGGAGTTACTAGGGATCGATTGTATGGTAGATCATATTGGGGTGATCAAGAGTTTGTGGTGGTAGACACCG
ttttttttttccta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttttgctaacatttgaattttttttttcttttttttttcctaccattttatgtaagttgtctttacaatgcatttcagGAGAATAGAGCTATTGTAGTGGATGAACCTGGAGTTACTAGGGATCGATTGTATGGTAGATCATATTGGGGTGATCAAGAGTTTGTGGTGGTAGACACCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG