Sequence
atgc intronic sequence ATGC exonic sequencegtaagtggtgctatcttatttatatcatgttgagtgttgagtaacgtgtttctcattgaacaacaataaaattatgctttcagAGTCGTGGAGGACTTCAAAGAATGGACAAATTGGCTCTTTTACAGAGGTGGAATTGGTGTGAAAGGAGCTGAAAGCTGGGAAGCATGGTGGGAAGAAGAA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G07160.1 |
intron # | 45 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G07160.1 (Arabidopsis thaliana), 3'ss of exon 45
lower sequence: GRMZM2G453794_T01 (Zea mays), 3'ss of exon 11
gtaagtggtgctatcttatttatatc-atgt----tgagtgttgagtaacgtgtttctcattgaacaacaataaaattatgctttcagAGTCGTGGAGGACTTCAAAGAATGGACAAATTGGCTCTTTTACAGAGGTGGAATTGGTGTGAAAGGAGCTGAAAGCTGGGAAGCATGGTGGGAAGAAGAA
||||| | || | | |||| |||| | ||| | | | | | | ||| | ||| | || | || | || ||||| |||| ||| |||||||||||||| ||||| ||||||| |||||||| ||||||| |||||||||||||| |||||||||||||||
gtaagcagccaagcattttgtgtatctatgtactataagttcaaattgtcat-tatgagattagatttcaaacccttctccctcttagGATTGTTGAGGATTTCAGAGACTGGACAAATTGGCTGTTTTATCGAGGTGGTATTGGTGTTAAAGGAGAAGAAAGCTGGGAAGCTTGGTGGGAAGAAGAA
upper sequence: AT3G07160.1 (Arabidopsis thaliana), 3'ss of exon 45
lower sequence: GLYMA20G38860.1 (Glycine max), 3'ss of exon 48
gtaagtggtgctatcttatttatatcatgttgagtgttgagtaacgtgtttctcattgaacaacaataaaattatgctttcagAGTCGTGGAGGACTTCAAAGAATGGACAAATTGGCTCTTTTACAGAGGTGGAATTGGTGTGAAAGGAGCTGAAAGCTGGGAAGCATGGTGGGAAGAAGAA
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gtaagtattatctatttatctttgt-attcttcctggcatgtctcatgagtcatgattattttccttcacggtgcttttttagGGTGGTGGAAGATTTCAGAGATTGGACAAATTGGCTACTCTACCGAGGTGGAATTGGTGTTAAGGGAGAAGAAAGCTGGGAAGCTTGGTGGGAAGAAGAA
upper sequence: AT3G07160.1 (Arabidopsis thaliana), 3'ss of exon 45
lower sequence: GLYMA10G44150.1 (Glycine max), 3'ss of exon 46
gtaagtggtgctatcttatttatatcatgttgagtgttgagtaacgtgtttctcattgaacaacaataaaat--tatgctttcagAGTCGTGGAGGACTTCAAAGAATGGACAAATTGGCTCTTTTACAGAGGTGGAATTGGTGTGAAAGGAGCTGAAAGCTGGGAAGCATGGTGGGAAGAAGAA
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gtaagta--------ttatctat-ttatcttgaactttgacaggcatgtctcatgattattttccctcacacagtgtttttttagGGTGGTGGAAGATTTCAGAGATTGGACAAATTGGCTACTCTACCGAGGTGGAATTGGTGTTAAGGGAGAAGAAAGCTGGGAAGCTTGGTGGGAAGAAGAA
upper sequence: AT3G07160.1 (Arabidopsis thaliana), 3'ss of exon 45
lower sequence: Vv06s0004g01200.t01 (Vitis vinifera), 3'ss of exon 43
gtaagtggtgctatcttatttatatcatgttgagtgttgagtaacgtgtttctcattgaacaacaataaaattatgctttcagAGTCGTGGAGGACTTCAAAGAATGGACAAATTGGCTCTTTTACAGAGGTGGAATTGGTGTGAAAGGAGCTGAAAGCTGGGAAGCATGGTGGGAAGAAGAA
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gtaagtatcatttttctaattttctctc-----tcatggatttgctcatgttttattaaccatttgttttaccc--cttttagGACTGTGGAGGACTTTCGGGATTGGACAAACTGGCTTTTTTACAGAGGTGGAATTGGAGTTAAGGGAGGAGAAAGCTGGGAGGCTTGGTGGGATGAAGAA
upper sequence: AT3G07160.1 (Arabidopsis thaliana), 3'ss of exon 45
lower sequence: EFJ05083 (Selaginella moellendorffii), 3'ss of exon 45
gtaagtggtgctatcttatttatatcatgttgagtgttgagtaacgtgtttctcattgaacaacaataaaattatgctttcagAGTCGTGGAGGACTTCAAAGAATGGACAAATTGGCTCTTTTACAGAGGTGGAATTGGTGTGAAAGGAGCTGAAAGCTGGGAAGCATGGTGGGAAGAAGAA
||||| || | | ||| ||| ||||| | || ||| | | ||| |||||| ||||| |||||| | || ||||| || ||||| || || | ||||||| | || |||||||||| || |||||||||||||||||||| |||||
gtaagcacaactgtaatttttctat--ggttgattattccac----tgtcttcgtcttaac-----------------ttcagAACTGTGGACGACTTCGATGACTGGACGAACTGGCTTTTGTATAAAGGTGGAGTCGGAGTGAAAGGAGAAGAGAGCTGGGAAGCATGGTGGGATGAAGAG
upper sequence: AT3G07160.1 (Arabidopsis thaliana), 3'ss of exon 45
lower sequence: EFJ07568 (Selaginella moellendorffii), 3'ss of exon 45
gtaagtggtgctatcttatttatatcatgttgagtgttgagtaacgtgtttctcattgaacaacaataaaattatgctttcagAGTCGTGGAGGACTTCAAAGAATGGACAAATTGGCTCTTTTACAGAGGTGGAATTGGTGTGAAAGGAGCTGAAAGCTGGGAAGCATGGTGGGAAGAAGAA
||||| || | | ||| ||| ||||| | || ||| | | ||| ||||| ||||| |||||| | || ||||| || ||||| || || | ||||||| | || |||||||||| || |||||||||||||||||||| |||||
gtaagcacaactgtaatttttctat--ggttgattattccac----tgtcttcgtcttaac-----------------ttcagGACTGTGGACGACTTCGATGACTGGACGAACTGGCTTTTGTATAAAGGTGGAGTCGGAGTGAAAGGAGAAGAGAGCTGGGAAGCATGGTGGGATGAAGAGMapped 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|116471787|gb|EG514379.1|EG514379EST: GGATTTGAGTGGCAGAA AGTCGTGGAGGACTTCAAAGAATGGACAAATTGGCTCTTTTACAGAGGTGG
genomic: GGATTTGAGTGGCAGAAgtaagtggtg ... atgctttcagAGTCGTGGAGGACTTCAAAGAATGGACAAATTGGCTCTTTTACAGAGGTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttgagtgttgagtaacgtgtttctcattgaacaacaataaaattatgctttcagAGTCGTGGAGGACTTCAAAGAATGGACAAATTGGCTCTTTTACAGAGGTGGAATTGGTGTGAAAGGAGCTGAAAGCTGGGAAGCATGGTGGGAAGAAGAA
gagtaac putative branch site (score: 2)
tgctttc putative PPT
attgaacaacaataaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtggtgctatcttatttatatcatgttgagtgttgagtaacgtgtttctcattgaacaacaataaaattatgctttcagAGTCGTGGAGGACTTCAAAGAATGGACAAATTGGCTCTTTTACAGAGGTGGAATTGGTGTGAAAGGAGCTGAAAGCTGGGAAGCATGGTGGGAAGAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG