Sequence
atgc intronic sequence ATGC exonic sequencegtaagttttcaaatccattctggttaacttagcttggttaagttgcaagatagagttggatatattgaaatattaattaagtggttaacgttttaatagGTAGTAGACTCAATGGTAGTGGAACGGGCTCGTGGTGAGTCACAAAGCGTGTCAGGATCGCTGCAGTCTTTGTGCTGGGGATCCTCAGCTTTTGGTGGAA
Basic information
species | Arabidopsis thaliana |
transcript | AT2G32040.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G32040.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA10G39220.1 (Glycine max), 3'ss of exon 4
------gtaagttttcaaatccattctggttaacttagcttggttaagttgcaagatagagttggatatattgaaatattaattaagtggttaacgttttaatagGTAGTAGACTCAATGGTAGTGGAACGGGCTCGTGGTGAGTCACAAAGCGTGTCAGGATCGCTGCAGTCTTTGTGCTGGGGATCCTCAGCTTTTGGTGGAA
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cttattttatgttttcaattttat-ctgtctctgatattatggctgtagtgttttatcatct---atagattcaattgttc-cgagacactgagctgtgtttcagGTTGTAGATTCAATGGTTGTGGAGAGGGCACGTGGTGAGTCACAAAGCACCTCAGGATCTCTTCAGTCTTTATGTTGGGGTTCTTCGGCCTTTGGTGGAA
upper sequence: AT2G32040.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA20G28510.1 (Glycine max), 3'ss of exon 5
--------gtaagttttcaaatccattctggttaacttagcttggttaagttgcaagatagagttggatatattgaaatattaattaagtggttaacgttttaatagGTAGTAGACTCAATGGTAGTGGAACGGGCTCGTGGTGAGTCACAAAGCGTGTCAGGATCGCTGCAGTCTTTGTGCTGGGGATCCTCAGCTTTTGGTGGAA
|| |||||||| | || ||| | || ||| | | | || | |||| ||| ||| || | || | | | | | | | ||||| ||||| |||||||| ||||| |||| ||||||||||| |||||| || ||||| || |||||||| || ||||| || || || ||||||||||
accttattttatgttttcaattttat-ctgtctctgatattatggctgactggc----tgtagttt-atagattcaattgttcag-agacactgagctgtgttttagGTTGTAGATTCAATGGTTGTGGAGAGGGCACGTGGTGAGTCCCAAAGCACCTCGGGATCTCTTCAGTCTTTATGTTGGGGTTCTTCGGCCTTTGGTGGAA
upper sequence: AT2G32040.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv05s0020g03660.t01 (Vitis vinifera), 3'ss of exon 4
----gtaagttttcaaatccattctggttaacttagcttggttaagttgcaagatagagttggatatattgaaatattaattaagtggttaacgttttaatagGTAGTAGACTCAATGGTAGTGGAACGGGCTCGTGGTGAGTCACAAAGCGTGTCAGGATCGCTGCAGTCTTTGTGCTGGGGATCCTCAGCTTTTGGTGGAA
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tttggtgcattaagaagcatcctgtagttgg--tatttttttccttccatttatttatgtggcgtacttcacacgcttgtcttaatctgaagcatggta-tagGTTGTAGATTCCATGGTTGTAGAGAGGGCTCGGGGTGAGTCACAAAGCATGTCAGGATCGCTTCAGTCTTTATGCTGGGGATCCTCTGCTTTTGGTGGAAMapped 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|116448948|gb|EG491540.1|EG491540EST: CTGCTTTTTGTATACTTCTCGGTTCCCTCTCTGTCGCCTTTTCTGATGTT GTAGTAGACTCAATGGTAGTGGAACGGGCTCGTGGTGAGTCACAAAGCGTG
genomic: CTGCTTTTTGTATACTTCTCGGTTCCCTCTCTGTCGCCTTTTCTGATGTTgtaagttttc ... gttttaatagGTAGTAGACTCAATGGTAGTGGAACGGGCTCGTGGTGAGTCACAAAGCGTG
EST:
gi|124989596|gb|EL061897.1|EL061897EST: TGCTTTTTTGTATACTTCTCGGTTCCCTCTCTGTCGCCTTTTCTGATGTT GTAGTAGACTCAATGGTAGTGGAACGGGCTCGTGGTG
genomic: TGC-TTTTTGTATACTTCTCGGTTCCCTCTCTGTCGCCTTTTCTGATGTTgtaagttttc ... gttttaatagGTAGTAGACTCAATGGTAGTGGAACGGGCTCGTGGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcaagatagagttggatatattgaaatattaattaagtggttaacgttttaatagGTAGTAGACTCAATGGTAGTGGAACGGGCTCGTGGTGAGTCACAAAGCGTGTCAGGATCGCTGCAGTCTTTGTGCTGGGGATCCTCAGCTTTTGGTGGAA
atatattgaaatatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttttcaaatccattctggttaacttagcttggttaagttgcaagatagagttggatatattgaaatattaattaagtggttaacgttttaatagGTAGTAGACTCAATGGTAGTGGAACGGGCTCGTGGTGAGTCACAAAGCGTGTCAGGATCGCTGCAGTCTTTGTGCTGGGGATCCTCAGCTTTTGGTGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA