Sequence
atgc intronic sequence ATGC exonic sequencegtattaacggaatcaaagtctttttttgcgtgttgtttgctagttcattataggagatgctgaattggttttcatgacttgattagGTGCTAGAGGATGGTGTTCTTGATCCAGAGACTACTGTGGTTTCCATATTCCCATCTCCAATGCTCTATGCTGGTCCAACCGAAGTCCAATGGCACGCAA
Basic information
species | Arabidopsis thaliana |
transcript | AT4G14680.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G14680.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA10G38760.1 (Glycine max), 3'ss of exon 2
--------gtattaacggaatcaaagtctttttttgcgtgttgtttgc--tagttcattata-ggagatgctgaattggtt---ttcatgacttgattagGTGCTAGAGGATGGTGTTCTTGATCCAGAGACTACTGTGGTTTCCATATTCCCATCTCCAATGCTCTATGCTGGTCCAACCGAAGTCCAATGGCACGCAA
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tctccctcacctaagttattctgtggtttctttgtctccctaattagcattgatttgttcaacagaaaaactcacttgtatcaatttggtctttctttagGTACTTGAGGATGGTGTTCTTGATCCAGAGACAACTGTGGTATCCATATTCCCATCTCCCATGCACTATGCTGGACCCACGGAGGTGCAGTGGCATGCAA
upper sequence: AT4G14680.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA20G28980.2 (Glycine max), 3'ss of exon 2
--------------gtattaacggaatcaaagtctttttttgcgtgttgtttgctagttcattataggagatgctgaattggttttcatgacttgattagGTGCTAGAGGATGGTGTTCTTGATCCAGAGACTACTGTGGTTTCCATATTCCCATCTCCAATGCTCTATGCTGGTCCAACCGAAGTCCAATGGCACGCAA
||| | | | | | | | | | | | || | ||||| ||| | | | | || || |||||| || |||||||||||||||||||||||||| |||||||| ||||||||||| ||||| |||| ||||||||| || || || || || ||||| ||||
gcctgtctcccttctaatttatgtagtttcattgtctccctagttatcattgatttgttcaacataaaaactcccttgtatcaatttggtctttctttagGTACTTGAGGATGGTGTTCTTGATCCAGAGACCACTGTGGTATCCATATTCCCTTCTCCCATGCACTATGCTGGACCCACGGAGGTGCAGTGGCATGCAA
upper sequence: AT4G14680.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv05s0020g04210.t01 (Vitis vinifera), 3'ss of exon 2
----------------------gtattaacggaatcaaagtctttttttgcgtgttgtttgctagttcattatagga-------------gatgctga-----attggttttcatgac-ttgattagGTGCTAGAGGATGGTGTTCTTGATCCAGAGACTACTGTGGTTTCCATATTCCCATCTCCAATGCTCTATGCTGGTCCAACCGAAGTCCAATGGCACGCAA
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gttcatgaactgatcctatgatgtattgctcaatttgaaaatcagttatccctctgccagaagggtccattatgtaattgccttaccttcagttctaattctgattaatattgaaaatgttcctcagGTGCTTGAAGATGGGGTTCTTGATCCAGAGACAACTGTAGTTTCTATTTTCCCATCTCCCATGCACTATGCTGGTCCAACTGAGGTGCAGTGGCATGCAAMapped 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|47830057|gb|CK119741.1|CK119741EST: CAAAAGCTGATGATGTTCCTCTAAGCTGGCGAATGAAACAGCACGAGAAG GTGCTAGAGGATGGTGTTCTTGATCCAGAGACTACTGTGGTTTCCATATTC
genomic: CAAAAGCTGATGATGTTCCTCTAAGCTGGCGAATGAAACAGCACGAGAAGgtattaacgg ... acttgattagGTGCTAGAGGATGGTGTTCTTGATCCAGAGACTACTGTGGTTTCCATATTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttgtttgctagttcattataggagatgctgaattggttttcatgacttgattagGTGCTAGAGGATGGTGTTCTTGATCCAGAGACTACTGTGGTTTCCATATTCCCATCTCCAATGCTCTATGCTGGTCCAACCGAAGTCCAATGGCACGCAA
ttcattata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattaacggaatcaaagtctttttttgcgtgttgtttgctagttcattataggagatgctgaattggttttcatgacttgattagGTGCTAGAGGATGGTGTTCTTGATCCAGAGACTACTGTGGTTTCCATATTCCCATCTCCAATGCTCTATGCTGGTCCAACCGAAGTCCAATGGCACGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG