Sequence
atgc intronic sequence ATGC exonic sequencegtgcgtatctttttctctcataggttgcatctgctttgcttaagtttaggccttcttatactgttcataccggaaacttttattgcagGCATTATGCTGTCAACGCTTGCCTAGCACCTCTCTACTCTGTAGAAGGGATGCATGTAATATCCATTGAAGGAGTTGGTCATCGGAAACTTGGCTTGCAC
Basic information
species | Arabidopsis thaliana |
transcript | AT4G34900.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G34900.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA15G03870.1 (Glycine max), 3'ss of exon 2
---------------------------------------gtgcgtatctttttctctcataggttgcatctgctttgcttaagtttaggccttcttatactgttcataccggaaacttttattgcagGCATTATGCTGTCAACGCTTGCCTAGCACCTCTCTACTCTGTAGAAGGGATGCATGTAATATCCATTGAAGGAGTTGGTCATCGGAAACTTGGCTTGCAC
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gtaagtgtgtcgttcactctttctcgtgccttggtgatttgatgctcctacatgtgaagtgtgaagcacttccttcttgtatcttgacgtcaaatttaccattttagttttgaaaatgttctttcagACACTATGCTATCAATGCTTGCTTAGCACCTCTATATTCTGTAGAAGGGATGCACGTGATTACAGTGGAGGGATTGGGAAGCTGCAAGCGTGGACTACAC
upper sequence: AT4G34900.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA13G41520.1 (Glycine max), 3'ss of exon 3
---------------gtgcgtatctttttctctcataggttgcatctgctttgcttaagtttaggccttcttatactgt---------tca----taccg---------gaaacttttattgcagGCATTATGCTGTCAACGCTTGCCTAGCACCTCTCTACTCTGTAGAAGGGATGCATGTAATATCCATTGAAGGAGTTGGTCATCGGAAACTTGGCTTGCAC
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gtaagtgtgtctttcacgcttttctcgtgccttgatgatttgattctcctacgtgtgaagtgaagcacttcaatcttgtatcttaacatcaaatttaccattttagtttgaaaatgttctttcagACACTATGCTATCAATGCTTGCTTAGCACCTCTATATTCTGTAGAAGGCATGCATGTGATTACAGTGGAGGGATTGGGAAGCTGCAAGCGTGGACTACAC
upper sequence: AT4G34900.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv06s0004g02030.t01 (Vitis vinifera), 3'ss of exon 2
------------gtgcgtatctttttctctcataggttgcatctgctt--tgcttaagtttaggccttcttatactgtt-cataccggaaacttttattgcagGCATTATGCTGTCAACGCTTGCCTAGCACCTCTCTACTCTGTAGAAGGGATGCATGTAATATCCATTGAAGGAGTTGGTCATCGGAAACTTGGCTTGCAC
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tattgctacatggtttgcatgtaccagttatctgagcttcattccattgtttattggcatcaattgaaaatataatcctatatatcatgaatttttct---agGCATTATGCTGTCAATGCATGCTTAGCCCCTCTGTATTCTGTCGAAGGGATGCATGTAATTACAGTGGAGGGGATTGGAAACCGCAGAAATGGATTGCATMapped 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|19877239|gb|AU238070.1|AU238070EST: TCTTGCACCGTGATGGTGTCTAGTTATGACCGAGAGTCAAAGACATGTGT GCATTATGCTGTCAACGCTTGCCTAGCACCTCTCTACTCTGTAGAAGGGAT
genomic: TCTTGCACCGTGATGGTGTCTAGTTATGACCGAGAGTCAAAGACATGTGTgtgcgtatct ... tttattgcagGCATTATGCTGTCAACGCTTGCCTAGCACCTCTCTACTCTGTAGAAGGGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttgcttaagtttaggccttcttatactgttcataccggaaacttttattgcagGCATTATGCTGTCAACGCTTGCCTAGCACCTCTCTACTCTGTAGAAGGGATGCATGTAATATCCATTGAAGGAGTTGGTCATCGGAAACTTGGCTTGCAC
cttttatt CT-rich tract
aaacttttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgcgtatctttttctctcataggttgcatctgctttgcttaagtttaggccttcttatactgttcataccggaaacttttattgcagGCATTATGCTGTCAACGCTTGCCTAGCACCTCTCTACTCTGTAGAAGGGATGCATGTAATATCCATTGAAGGAGTTGGTCATCGGAAACTTGGCTTGCAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG