Sequence
atgc intronic sequence ATGC exonic sequencegtaagattctcttgtaaacatacttttctgtcgttggttttagtttatctttaacgataacttcatttatggatacagATATAGACTCAGACATAAGAGAGTGAACATAAGAGCTATGAAGCATTGGTGCAGACAAATCTTGAGAGGCTTACATTATCTTCACAGCCATGATCCTCCT
Basic information
species | Arabidopsis thaliana |
transcript | AT3G04910.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G04910.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA20G37180.1 (Glycine max), 3'ss of exon 3
-----------------------------------gtaagattctcttgtaaacatact----tttctgtcgttg----gttttagtttatctttaacgataacttcattta--tg-gatacagATATAGACTCAGACATAAGAGAGTGAACATAAGAGCTATGAAGCATTGGTGCAGACAAATCTTGAGAGGCTTACATTATCTTCACAGCCATGATCCTCCT
| |||| || | ||| | || | | |||| | || || | | | | | |||| |||| || || | || ||||| || | || |||||||| ||||| ||||| ||||||||||||| ||||| |||||||| || | | ||||||||||| || || || |||
gtaagttctttagttgcaactacattattttctgtccaccattcatttttgtgcattttagatcttgtatagttgaattggttcttcttctttctgatcttcacttgttttaattgtgaaatagGTATAGGCTAAAGCACAAGAGAGTTAACATCAGAGCAGTGAAGCATTGGTGTAGACAGATCTTGAGCGGACTTCTCTATCTTCACAGTCACGACCCGCCT
upper sequence: AT3G04910.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA10G30210.1 (Glycine max), 3'ss of exon 3
----------------------------------gtaagattctcttgtaaacatact----tttctgtcgttg----gttttagtttatctttaacgataacttcatttatggat---acagATATAGACTCAGACATAAGAGAGTGAACATAAGAGCTATGAAGCATTGGTGCAGACAAATCTTGAGAGGCTTACATTATCTTCACAGCCATGATCCTCCT
| |||| ||| | | | | || ||| |||| |||| || | | | |||||| |||| | | || ||||| || | || |||||||| ||||| ||||| ||||||||||||| ||||| |||||||| || | | |||||||| || || || || ||
gtaagttcttcagttgcaactacattatttctgttcatcattcacttttgtgcgttttagatcttgtgtagttgaattgtttcttcttcattctgatcttaacttgttttaattgtcaaatagGTATAGGCTAAAGCACAAGAGAGTTAACATCAGAGCAGTGAAGCATTGGTGTAGACAGATCTTGAGCGGACTTCTCTATCTTCATAGTCACGACCCACCG
upper sequence: AT3G04910.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA19G43210.1 (Glycine max), 3'ss of exon 3
-------------------------------------------------gtaagattctc-ttgtaaacatacttttctgtcgttggttttagtttatctttaacgataacttcatttatggatacagATATAGACTCAGACATAAGAGAGTGAACATAAGAGCTATGAAGCATTGGTGCAGACAAATCTTGAGAGGCTTACATTATCTTCACAGCCATGATCCTCCT
||| ||| | | | | ||||| | ||| || ||| | | | | || | |||| | |||||||| | | || |||||||| ||||| || || ||||||||||||| ||||||||| ||||||| | | |||||||| |||| ||| || |||
gtgagttccctccattttcaaccttttgccactcctctatattatatttgtatgatcattatcctttttgtgcttttgagaagttttgttattttttcttcttttatttattttaattatcacaatagATATAGGCAAAAGCACAAGAGAGTTAACATTAGGGCAGTGAAGCATTGGTGTAGACAAATCCTGAGAGGGCTTCTCTATCTTCATAGCCGTGACCCACCT
upper sequence: AT3G04910.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv14s0030g01660.t01 (Vitis vinifera), 3'ss of exon 3
---------gtaagattctcttgtaaacatacttt-tctgtcgttgg---tttta---gttta-------tctttaacgataacttcatttatggatacagATATAGACTCAGACATAAGAGAGTGAACATAAGAGCTATGAAGCATTGGTGCAGACAAATCTTGAGAGGCTTACATTATCTTCACAGCCATGATCCTCCT
| ||| ||| || | || | | | ||||||| ||||| ||||| | | | | | | || || | || ||||| | | || |||||||| ||||| ||||| ||||||||||||||||||| ||||||||||| | | || || || |||||||| || |||
gtaagtatcctcgaattttctggtcattttagtatgtgggtcgttgagatttttaccggtttaaatgggttttcttgcttttctatgtttgatcatgatagGTATAGGCAAAAGCACAAGAGAGTTAACATTAGAGCAGTGAAGCATTGGTGCAGACAGATCTTGAGAGGGCTTCTCTACCTCCATAGCCATGACCCACCT
upper sequence: AT3G04910.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv05s0020g03380.t01 (Vitis vinifera), 3'ss of exon 3
-------------------------------------------------gtaagattctcttgtaaacatacttt---tctgtcgttggttttagtttatcttt--aacgat----aacttcatttatg--gatacagATATAGACTCAGACATAAGAGAGTGAACATAAGAGCTATGAAGCATTGGTGCAGACAAATCTTGAGAGGCTTACATTATCTTCACAGCCATGATCCTCCT
| | |||||||| | | | ||| | ||| || || | | | || | ||||||||| | || ||||| || | ||| | |||||| ||||| |||||| ||||||||||||||||||| ||||| || || | | || || |||| |||| | || |||
gtaagtatcatacaagttccatgattatgaatgcctttttttttttttgttcaatttctcttgattttctgatctgggcatgttgagaatttgtgtaaattctgtgagcaattttcattttcatttattttgtggtagGTATAGGCTAAAACACAGGAGAGTTAACATCAGAGCTGTGAAGCATTGGTGCAGACAGATCTTAAGGGGGCTGCTCTACCTCCACAACCATAAACCCCCTMapped 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|164201985|gb|ES094931.1|ES094931EST: CGAAATACCAATTTCGTCACTGAATTGTTCACTTCTGGCACCTTAAGACA ATATAGACTCAGACATAAGAGA
genomic: CGAAATATCAATTTCGTCACTGAATTGTTCACTTCTGGCACCTTAAGACAgtaagattct ... atggatacagATATAGACTCAGACATAAGAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttctgtcgttggttttagtttatctttaacgataacttcatttatggatacagATATAGACTCAGACATAAGAGAGTGAACATAAGAGCTATGAAGCATTGGTGCAGACAAATCTTGAGAGGCTTACATTATCTTCACAGCCATGATCCTCCT
cgataac putative branch site (score: 3)
ttttagtttatcttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagattctcttgtaaacatacttttctgtcgttggttttagtttatctttaacgataacttcatttatggatacagATATAGACTCAGACATAAGAGAGTGAACATAAGAGCTATGAAGCATTGGTGCAGACAAATCTTGAGAGGCTTACATTATCTTCACAGCCATGATCCTCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG