Sequence
atgc intronic sequence ATGC exonic sequencegtacaataaacgcatatctacacctcttttcttggggatcactgttcacttcatgatctcacattgcaagtaataatgatatctctatcaataaagagaccttacttttctgctattccctcgcatatattttcagtgtttttctttacgtgttatctggcattctatctgcagTTCGTGGGATGATGTATTATAGGAAAGCCCTCATGCTTCAGTCTTATCTGGAAAGAAAAGCTGGCAATGACGCTACAGACGCTGAAGGATTTGAGTTATC
Basic information
species | Arabidopsis thaliana |
transcript | AT3G07160.1 |
intron # | 32 |
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 32
lower sequence: GRMZM2G114934_T01 (Zea mays), 3'ss of exon 1
gtacaataaacgcatatctacacctcttttcttggggatcactgttcacttcatgatctcacattgcaagtaataatgatatctctatcaataaagagaccttacttttctgctattccctcgcatatattttcagtgtttttctttacgtgttatctggcattctatctgcagTTCGTGGGATGATGTATTATAGGAAAGCCCTCATGCTTCAGTCTTATCTGGAAAGAAAAGCTGGCAATGACGCTACAGACGCTGAAGGATTTGAGTTATC
| | | | | | | ||| || || | | ||| | | |||| | |||| || | | || | || | || ||||||| ||||| |||||||| |||||||||||||| ||||| ||| |||| |||| || | | | |
-------------------------------------------------------------------atctgtttgtcctccttgaacttctaagtggaactcattcgctcaatatat--ttgattataat--cagttcacgtcaaca-atattttttgttttact--ctgcagTCCGTGGTATGATGTACTATAGGAAAGCCCTTATGCTGCAGAGTTATTTGGAGAGGATACAATCTGAAG-------------------------------
upper sequence: AT3G07160.1 (Arabidopsis thaliana), 3'ss of exon 32
lower sequence: GLYMA10G44150.2 (Glycine max), 3'ss of exon 32
gtacaataaacgcatatctacacctcttttcttggggatcactgttcacttcatgatctcacattgcaagtaataatgatatctctatcaataaagagaccttacttttctgctattccctcgcatatattttcagtgtttttctttacgtgttatctggcattctatctgcagTTCGTGGGATGATGTATTATAGGAAAGCCCTCATGCTTCAGTCTTATCTGGAAAGAAAAGCTGGCAATGACGCTACAGACGCTGAAGGATTTGAGTTATC
| ||||||| || | | || | | | || | | ||| ||| | |||||| | |||| || |||| | || || || ||||||| ||||||||||||||||||||||| || ||||||||| | ||| |||| || | | | |||
---------------------------------------------------------------------gacataatgagatatttgtctaaatctaatactatcaaagaaggtatctcctgctagatatttactacattttctgttctttgttgtttgaaatgct-----cagTTCGGGGGATGATGTATTATAGGAAAGCTCTTATGCTTCAGACCTATTTGGAGAGGACAAC-AGCAGGAG------------------------------
upper sequence: AT3G07160.1 (Arabidopsis thaliana), 3'ss of exon 32
lower sequence: GLYMA20G38860.1 (Glycine max), 3'ss of exon 34
gtacaataaacgcatatctacacctcttttcttggggatcactgttcacttcatgatctcacattgcaagtaataatgatatctctatcaataaagagaccttacttttctgctattccctcgcatatattttcagtgtttttctttacgtgttatctggcattctatctgcagTTCGTGGGATGATGTATTATAGGAAAGCCCTCATGCTTCAGTCTTATCTGGAAAGAAAAGCTGGCAATGACGCTACAGACGCTGAAGGATTTGAGTTATC
| |||| | ||||| | | | ||| | | | | ||| || | |||||| | ||| || |||| |||| || | ||||||| ||||||||||||||||||||||| || ||||||||| | ||| |||| || | | ||| |
------------------------------------------------------------------tacataatga-gatatttgtctaaatcttataatatcaaagaa--gatatctactgcaaaatatttactacatttgctgttctttgttgtctgaaatgc-----acagTTCGGGGGATGATGTATTATAGGAAAGCTCTTATGCTTCAGACCTATTTGGAGAGGACAACTGCTGGAG-------------------------------
upper sequence: AT3G07160.1 (Arabidopsis thaliana), 3'ss of exon 32
lower sequence: Vv06s0004g01200.t01 (Vitis vinifera), 3'ss of exon 29
gtacaataaacgcatatctacacctcttttcttggggatcactgttcacttcatgatctcacattgcaagta-ataatgatatctctatcaataaagagaccttacttttctgctattccctcgcatatattttcagtgtttttctttacgtgttatctggcattctatctgcagTTCGTGGGATGATGTATTATAGGAAAGCCCTCATGCTTCAGTCTTATCTGGAAAGAAAAGCTGGCAATGACGCTACAGACGCTGAAGGATTTGAGTTATC
|||| || ||| | ||| | || ||| | | | | | ||| |||| | | ||||| | | ||||| | || ||| || ||||||||||| |||||||| ||||||||||| || ||||||||| |||| ||||||| || |||| |
--------------------------------------------------------------gttgctgctatatagtagtatat-tagcaaatgtgtaagcaggcatatct-ctatgctttaat---tattta------tctgctttatcaataatttggtga--gattggcagTTCGTGGAATGATGTACTATAGGAAAGCTCTTATGCTTCAGAGTTATTTGGAAAGGAATGCTGCTGGAG-------------------------------
upper sequence: AT3G07160.1 (Arabidopsis thaliana), 3'ss of exon 32
lower sequence: PP1S40_186V6.2 (Physcomitrella patens), 3'ss of exon 16
gtacaataaacgcatatctacacctcttttcttggggatcactgttcacttcatgatctcacattgcaagtaataatgatatctctatca-ataaagagaccttacttttctgctattccctcgcatatattttcagtgtttttctttacgtgttatctggcattctatctgcagTTCGTGGGATGATGTATTATAGGAAAGCCCTCATGCTTCAGTCTTATCTGGAAAGAAAAGCTGGCAATGACGCTACAGACGCTGAAGGATTTGAGTTATC
| | || | |||| ||||| ||| | | || | | | | | || ||| | | | | | || | | || | | | | | |||||||||||||||||||||||||| | || || | | || | | | |||| |||||
-----------------------------------------------------------------------accacatttagcactatggtataaatagatcatcattgttttccgtactggttagta-attatgaat--tcaagtctatttctgatgtagttctgt-tttgcagTTCGTGGGATGATGTATTATAAAAGGGCTCTTGTATTACAAGCACAAC----AAGAGGGTGCTTCAATGGAAG---------------------------Mapped 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|116421625|gb|EG464217.1|EG464217EST: TGAACTTCGATTTTGGGCCTCTTACCGTGGACAAACGTTAGCTAGAACAG TTCGTGGGATGATGTATTATAGGAAAGCCCTCATGCTTCAGTCTTATCTGG
genomic: TGAACTTCGATTTTGGGCCTCTTACCGTGGACAAACGTTAGCTAGAACAGgtacaataaa ... ctatctgcagTTCGTGGGATGATGTATTATAGGAAAGCCCTCATGCTTCAGTCTTATCTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctcgcatatattttcagtgtttttctttacgtgttatctggcattctatctgcagTTCGTGGGATGATGTATTATAGGAAAGCCCTCATGCTTCAGTCTTATCTGGAAAGAAAAGCTGGCAATGACGCTACAGACGCTGAAGGATTTGAGTTATC
ttctatct CT-rich tract
atatattttca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacaataaacgcatatctacacctcttttcttggggatcactgttcacttcatgatctcacattgcaagtaataatgatatctctatcaataaagagaccttacttttctgctattccctcgcatatattttcagtgtttttctttacgtgttatctggcattctatctgcagTTCGTGGGATGATGTATTATAGGAAAGCCCTCATGCTTCAGTCTTATCTGGAAAGAAAAGCTGGCAATGACGCTACAGACGCTGAAGGATTTGAGTTATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG