Sequence
atgc intronic sequence ATGC exonic sequencegttaacatttttgttatttcatttcacataaatgtgtaacaaataagtaatgtcgtatataatgagaattgatgcagCTTATTAAACCGGACGTGGAGATAAAGATGGTAGAGAACACACCTGATGATCCAAGGCAGAGGAAACCAGACATAAGCAAAGCTAAAGAAGTTCTTGGTT
Basic information
species | Arabidopsis thaliana |
transcript | AT2G28760.2 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G28760.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA12G06980.3 (Glycine max), 3'ss of exon 12
--------------gttaacatttttgttatttcatttcaca-taaatgt----gtaacaaat----aagtaatgtcgtatataatgagaattgatgcagCTTATTAAACCGGACGTGGAGATAAAGATGGTAGAGAACACACCTGATGATCCAAGGCAGAGGAAACCAGACATAAGCAAAGCTAAAGAAGTTCTTGGTT
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gatgtaatgagggattctgtgtttttaccttgtggattaataatgaaacttttggtgaaaaactttgaagttagctaatgctttatgtatggttttgcagCTTATTAATCCAAAAGTGGAGATAAATATGGTTGAGAACACTCCTGACGATCCTCGTCAGAGAAAACCAGACATTACAAAAGCAAAGGAATTGCTGGGAT
upper sequence: AT2G28760.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA13G40960.1 (Glycine max), 3'ss of exon 13
-----------------------------------------------------------------------gttaacatttttgttatttcatttcaca---taaatgtgtaacaaataag--taatgtcgtatataatgagaattgat-gcagCTTATTAAACCGGACGTGGAGATAAAGATGGTAGAGAACACACCTGATGATCCAAGGCAGAGGAAACCAGACATAAGCAAAGCTAAAGAAGTTCTTGGTT
|| | | ||||| || | | | |||| | | | | | ||| || | || | | | | |||||||||||| || | |||||||| |||||||| |||||||| ||||||||||| | || || ||||||||||| | ||||| || ||| | | || |
gtcagttttaagcatctttaaatataattgagctatttttcttaaggtggattgcatgttcagtgtaccaaaccaatttcatccatatttatgttgaaagtgtgaatgaaaatcttttcaagtttttgtttaatgttttgtgggtggtttgcagCTTATTAATCCAGGTGTGGAGATCAAGATGGTGGAGAACACTCCTGATGATCCGCGACAAAGAAAACCAGACATCACAAAAGCAAAGGAATTGTTGGGCT
upper sequence: AT2G28760.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA12G06990.1 (Glycine max), 3'ss of exon 12
-------------------------gttaacatttttgttatttcatttcacataaatgtgtaaca-aataagtaatgtcgtatataatgagaattgatgcagCTTATTAAACCGGACGTGGAGATAAAGATGGTAGAGAACACACCTGATGATCCAAGGCAGAGGAAACCAGACATAAGCAAAGCTAAAGAAGTTCTTGGTT
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acataaagattgtgcaggtatagagaccaaatgaataattaaaccatct-atattaatggatttctcggaaaatagtttaattcatactcttgttt--tgcagCTTATTAATCCAGATGTGGAGATAAAGGTAGTGGAGAACACTCCTGATGATCCGCGACAGAGAAAACCAATCATAACAAAAGCAATGGAATTGCTTGGCT
upper sequence: AT2G28760.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA15G04500.1 (Glycine max), 3'ss of exon 13
----------------------gttaacatttttgttatttcatttcacataaatgtgtaacaaataagtaatgtc--gtatataatgagaattgatgcagCTTATTAAACCGGACGTGGAGATAAAGATGGTAGAGAACACACCTGATGATCCAAGGCAGAGGAAACCAGACATAAGCAAAGCTAAAGAAGTTCTTGGTT
| |||| ||| | | | | ||| | | ||| | | | | | | || | | | ||||||||||| || | |||||||| |||||||| |||||||| |||||||| ||| | || || ||||||||||| | ||||| || ||| | | || |
ttgtaccagatcaatacatttcacccatatttatgt-gcaaagtgtgaaagaaaattttggcaagaagtttttatttgatgctttgtgggtggtttttcagCTTATTAATCCAGGTGTGGAGATCAAGATGGTGGAGAACACTCCTGATGACCCACGACAAAGAAAACCAGACATCACAAAAGCAAAGGAATTGTTGGGCT
upper sequence: AT2G28760.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA11G15020.1 (Glycine max), 3'ss of exon 12
---------------------gttaacatttttgttatttcatttcacataaatgtgtaacaaataagtaatgtcgtatataatgagaattgat--gcagCTTATTAAACCGGACGTGGAGATAAAGATGGTAGAGAACACACCTGATGATCCAAGGCAGAGGAAACCAGACATAAGCAAAGCTAAAGAAGTTCTTGGTT
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ttatgaaggtatagaaattaaatgaataattaaactcgcctatattaatgaatttctcggaaaatagtttctaattcatactcttgtggtcgatttgcagCTAATTAATCCAGATGTGGAGATAAAGGTAGTGGAGAACACTCCTGATGATCCGCGACAGAGAAAACCAATTATAACAAAAGCAATGGAATTGCTTGGCT
upper sequence: AT2G28760.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv06s0004g04390.t01 (Vitis vinifera), 3'ss of exon 12
---------------gttaacatttttgttatttcatttcacataaatgtgtaa-------caaataagtaatgtcgtatataatgaga-attgatgcagCTTATTAAACCGGACGTGGAGATAAAGATGGTAGAGAACACACCTGATGATCCAAGGCAGAGGAAACCAGACATAAGCAAAGCTAAAGAAGTTCTTGGTT
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gaattcaaacatggttgtgaaatacagaggatttcaattcagttgagttgttattttggctctgatggattgataaatgcttaatggctcgatgttgcagCTAATTAATCCTGAGGTGGTGATAAAAATGGTAGATAACACTCCTGATGATCCACGACAGAGGAAACCAGACATTTCTAAGGCTAAAGAATTGTTAGGATMapped 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|86087043|gb|DR382802.1|DR382802EST: GCAATCCAGGCGAATTCACGATGGTTGAGCTCGCTGAGACGGTTAAAGAG CTTATTAAACCGGACGTGGAGATAAAGATGGTAGAGAACACACCTGATGAT
genomic: GCAATCCAGGCGAATTCACGATGGTTGAGCTCGCTGAGACGGTTAAAGAGgttaacattt ... attgatgcagCTTATTAAACCGGACGTGGAGATAAAGATGGTAGAGAACACACCTGATGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcacataaatgtgtaacaaataagtaatgtcgtatataatgagaattgatgcagCTTATTAAACCGGACGTGGAGATAAAGATGGTAGAGAACACACCTGATGATCCAAGGCAGAGGAAACCAGACATAAGCAAAGCTAAAGAAGTTCTTGGTT
taacaaataagtaat 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
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gttaacatttttgttatttcatttcacataaatgtgtaacaaataagtaatgtcgtatataatgagaattgatgcagCTTATTAAACCGGACGTGGAGATAAAGATGGTAGAGAACACACCTGATGATCCAAGGCAGAGGAAACCAGACATAAGCAAAGCTAAAGAAGTTCTTGGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT