Sequence
atgc intronic sequence ATGC exonic sequenceGTTAGGATCTGTAGGGAGAAGGGAACAGGCAATGTCTATGCAATGAAGAAGCTTAAGAAATCTGAGATGCTTCGCAGAGGCCAGgtatttaaattccttcaagtggctttcgtttgacatttgtttagttggttgatgtgaatgtggaatctgattttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G14350.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G14350.3 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA10G32480.1 (Glycine max), 5'ss of exon 3
GTTAGGATCTGTAGGGAGAAGGGAACAGGCAATGTCTATGCAATGAAGAAGCTTAAGAAATCTGAGATGCTTCGCAGAGGCCAGgtatttaaattccttcaagtggctttcgtttgacatttgtttagttggttgatgtgaatgtggaatctgattttcag----------
|| || |||| | ||||| ||| || |||| ||||| |||||||| ||||||||||| |||||||||||||||||||||||| |||| | | ||| || ||| | || || | ||| | | | || | |||| |
GTCAGAGTCTGCCGAGAGAAAACAACTGGTCATGTATATGCTATGAAGAAACTTAAGAAATCAGAGATGCTTCGCAGAGGCCAGgtaacaaaataagcaggacttgctctcatttttaaaatgaatattgtcttgttatattcattga--ttactttttatccctgtttag
upper sequence: AT4G14350.3 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA20G35110.1 (Glycine max), 5'ss of exon 3
GTTAGGATCTGTAGGGAGAAGGGAACAGGCAATGTCTATGCAATGAAGAAGCTTAAGAAATCTGAGATGCTTCGCAGAGGCCAGgtatttaaattccttcaagtggctttcgt--ttgacatttgtttagt-tggttgatgtgaatgtggaatctgattttcag-----
|| || |||| | ||||| | ||| || |||| ||||| |||||||| ||||||||||| ||||||||||||||||||||||| |||| | | ||| || | || | || | | || | ||| | | | || | | | | | |
GTCAGAGTCTGCCGAGAGAAAGCAACCGGTCATGTATATGCTATGAAGAAACTTAAGAAATCAGAGATGCTTCGCAGAGGCCAGgttacaaaatcatcaggacttgctctcattgttaaaatgaatattgtcttgttaaattcattggttactttctatccctgtttag
upper sequence: AT4G14350.3 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA10G00830.1 (Glycine max), 5'ss of exon 3
GTTAGGATCTGTAGGGAGAAGGGAACAGGCAATGTCTATGCAATGAAGAAGCTTAAGAAATCTGAGATGCTTCGCAGAGGCCAGgtatttaaattccttcaagtggctttcgtttgacatttgtttagttggttgatgtgaatgtggaatctgattttcag
||||| ||||| ||||||||| || ||| |||| ||||| |||||||||||||||||||| |||||||| || ||||||||||| ||||| || || || | | | ||| | || || || | | |||||||
GTTAGAATCTGCCGGGAGAAGGCCACTGGCCATGTTTATGCTATGAAGAAGCTTAAGAAATCAGAGATGCTACGAAGAGGCCAGgtg---aaattatcacat-tgttagagacttagagtaaatattgttttcttatatgtattggatacacttttttcag
upper sequence: AT4G14350.3 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA02G00580.2 (Glycine max), 5'ss of exon 4
GTTAGGATCTGTAGGGAGAAGGGAACAGGCAATGTCTATGCAATGAAGAAGCTTAAGAAATCTGAGATGCTTCGCAGAGGCCAGgtatttaaattccttcaagtggctttcgtttgacatttgtttagttggttgatgtgaatgtggaatctgattttcag
||||| ||||| ||||||||| || || |||| ||||| |||||||||||||||||||| |||||||| || ||||||||||| ||||| || || || | | | | ||| | || || |||| | | ||||||
GTTAGAATCTGCCGGGAGAAGGCCACTGGTCATGTATATGCTATGAAGAAGCTTAAGAAATCAGAGATGCTACGTAGAGGCCAGgtg---aaattatcacat-tgttagagacttagtgtatatattgttttcttatacttat-tggatac--actttcag
upper sequence: AT4G14350.3 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv05s0049g01220.t01 (Vitis vinifera), 5'ss of exon 3
GTTAGGATCTGTAGGGAGAAGGGAACAGGCAATGTCTATGCAATGAAGAAGCTTAAGAAATCTGAGATGCTTCGCAGAGGCCAGgtatttaaattccttcaagtggctttcg-tttgacatttgtttagttggttgatgtgaatgtggaatctgattttcag-------
||||| |||| ||||||||| ||| ||| |||| ||||| |||||||||||||||||||| ||||||||||| || |||||||||| | | || |||| | ||| | |||| || || | | | || || || || | |
GTTAGAGTCTGCAGGGAGAAGAAAACCGGCCATGTATATGCCATGAAGAAGCTTAAGAAATCAGAGATGCTTCGAAGGGGCCAGgtatg-acttctgttggcctggcagacaatttattgtgtgttatatttatttttcttattgcccgatttgcttcttaatatttag
upper sequence: AT4G14350.3 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: PP1S22_429V6.1 (Physcomitrella patens), 5'ss of exon 3
GTTAGGATCTGTAGGGAGAAGGGAACAGGCAATGTCTATGCAATGAAGAAGCTTAAGAAATCTGAGATGCTTCGCAGAGGCCAGgtat-ttaaattccttcaagtggctttcgtttg-acatttgtttag----ttggttgatgtgaatgtgga--atctgattttcag-------------------------------------------------------------------------------------------------------------------
|| ||| | || | ||||| || | ||| ||||| ||||||||||| ||||| || ||||||||||| |||||||||||| | | | | | |||| | |||| | | |||| | || ||| || | || | | | | |
GTGAGGTTATGCCGAGAGAAATCAAGTACAACTGTGTATGCCATGAAGAAGCTGAAGAAGTCCGAGATGCTTCGGAGAGGCCAGgtacgtcacgtgtatatatgtggaagttgtttatagaattgtatctgtctttatttgccgtttgccaaaatcatataactctgaagaatcgactgaaggtcaaatctggagttattgttatgttttgttactcactttagtaatcgaaatctgaaggggattactttaccattttaatcaatggataaacactattgcag
upper sequence: AT4G14350.3 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: PP1S86_100V6.1 (Physcomitrella patens), 5'ss of exon 3
GTTAGGATCTGTAGGGAGAAGGGAACAGGCAATGTCTATGCAATGAAGAAGCTTAAGAAATCTGAGATGCTTCGCAGAGGCCAGgtatttaa-----attccttcaagtggctttcgt---ttgacatttgtttag----ttggttgatgtgaatgtggaatct-----gattttcag------
|| || | || |||||||| || | ||| ||||| ||||| ||||| ||||| ||||||||||| || |||||||||||| || | || | || |||| | | || | | ||| ||| ||||| | | ||||| | | | |
GTGAGATTATGCAGGGAGAAATCAAGTACGACTGTGTATGCTATGAAAAAGCTGAAGAAGTCTGAGATGCTACGAAGAGGCCAGgtaattcatgtgtatacgtttaagttgtctgtgtgatctaatttttatttgaagtaccggttgctagaagcatggaacattgaagaagctgtaaagctct
upper sequence: AT4G14350.3 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: PP1S87_129V6.1 (Physcomitrella patens), 5'ss of exon 3
GTTAGGATCTGTAGGGAGAAGGGAACAGGCAATGTCTATGCAATGAAGAAGCTTAAGAAATCTGAGATGCTTCGCAGAGGCCAGgtatttaaattccttcaagtggct-ttcgtttgacat--ttgtttagttggttgatgtgaatgtggaa-----tctgattttcag---------------
|| ||| | || || ||||| || | |||||||| ||||| || || ||||| |||||||||||||| |||||||||||| || ||| | | | || || | |||| | | || | || || | | | | || || ||| | |
GTGAGGTTGTGCAGAGAGAAAACAAGTTCTACAGTCTATGCCATGAAAAAACTGAAGAAGTCTGAGATGCTTCGAAGAGGCCAGgtactttaatctttgtatttttctatttgcttgatagaatcgtgtccactgtggagatcactttcaaaagatatcggatgctaggaaaacgggagaaattMapped 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|47828550|gb|CK118234.1|CK118234EST: TCTATGCAATGAAGAAGCTTAAGAAATCTGAGATGCTTCGCAGAGGCCAG GTGGAACATGTAAAAGCAGAGAGAAATTTACTTGCAGAAGTTGATAGCAAT
genomic: TCTATGCAATGAAGAAGCTTAAGAAATCTGAGATGCTTCGCAGAGGCCAGgtatttaaat ... tgattttcagGTGGAACATGTAAAAGCAGAGAGAAATTTACTTGCAGAAGTTGATAGCAAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTAGGATCTGTAGGGAGAAGGGAACAGGCAATGTCTATGCAATGAAGAAGCTTAAGAAATCTGAGATGCTTCGCAGAGGCCAGgtatttaaattccttcaagtggctttcgtttgacatttgtttagttggttgatgtgaatgtggaatctgattttcag
- - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG