Sequence
atgc intronic sequence ATGC exonic sequencegtactttcatcttttcttcaatcgatttcgttagattcgattccttagggtttttatacttgtggttgttattgtgtagATTGTTTCTTCGCTTTGAAGGTATGGAACGCACAGAAAGCAGGTGCTTCTGCTGTTCTTGTAGCTGATAATGTTGATGAGCCTTTGATTACAATGGATAC
Basic information
species | Arabidopsis thaliana |
transcript | AT2G14720.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G14720.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA11G00370.1 (Glycine max), 3'ss of exon 1
gtactttcatcttttcttcaatcgatttcgttagattcgattccttagggtttttatacttgtggttgttattgtgtagATTGTTTCTTCGCTTTGAAGGTATGGAACGCACAGAAAGCAGGTGCTTCTGCTGTTCTTGTAGCTGATAATGTTGATGAGCCTTTGATTACAATGGATAC
||| | || ||| || |||| || | ||| || |||| || || | ||| | || ||| ||||| ||||||||||| ||||| || ||||| || |||||||||||||||||||| || ||| ||||||| ||||| || ||||| ||||| ||
gtaacatttctactttttctatt--tttcttttctcccaattact----attttcttatttat---tgtgtggaggcagGTTGCTTCTTTGCTTTGAAGGTCTGGAATGCCCAGAAGGCTGGTGCTTCTGCTGTTCTTGTTGCCGATGATGTTGAGGAGCCCTTAATTACTATGGACAC
upper sequence: AT2G14720.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA20G27000.1 (Glycine max), 3'ss of exon 1
--------------------gtactttcatcttttcttcaatcgatttcgttagattcgattccttagggtttttatacttgtggt-tgtta-ttgtgtagATTGTTTCTTCGCTTTGAAGGTATGGAACGCACAGAAAGCAGGTGCTTCTGCTGTTCTTGTAGCTGATAATGTTGATGAGCCTTTGATTACAATGGATAC
|| | | | | || | | || || || | || | | | | || | | |||| || || |||||| ||||| ||||||||||||||||| |||||||| || || ||||||||||||||||| || ||| || ||| || ||||| || ||||| ||
tgtggtgtgcttttgcacaagtgacatgctgtaagtatgaacaggtctcaatatgtt-gcttgggtgtattctaagtgttttttatgtgttccttttgcagATTGCTTCTTTGCTTTGAAGGTATGGAATGCACAGAAGGCTGGAGCTTCTGCTGTTCTTGTTGCGGATGATATTGTGGAAAAGTTGATAACCATGGACAC
upper sequence: AT2G14720.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA10G40340.1 (Glycine max), 3'ss of exon 1
--------------gtactttcatcttttcttcaat-cgatttcgt-tagattcgattccttagggtttttatacttgtggttgt-----tattgtgtagATTGTTTCTTCGCTTTGAAGGTATGGAACGCACAGAAAGCAGGTGCTTCTGCTGTTCTTGTAGCTGATAATGTTGATGAGCCTTTGATTACAATGGATAC
|| || | | | | || || | ||| | | | | | | || | | || || | || || |||||| ||||| ||||||||||||||||| |||||||| || || ||||||||||||||||| | ||| || |||| || ||||| || ||||| ||
tgtgatttgcttttacacaagtgtcatgctgtaagtatgaccaagtcttgatatgttgcttgggtgcattctaagtggtttttatgtgttccttttgcagATTGCTTCTTTGCTTTGAAGGTATGGAATGCACAGAAGGCTGGAGCTTCTGCTGTTCTTGTTTCGGATGATATTGAGGAAAAGTTGATAACCATGGACAC
upper sequence: AT2G14720.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA01G45380.1 (Glycine max), 3'ss of exon 1
------------gtactttcatcttttcttcaatcgatttcgttagattcgattccttagggtttttatacttgtggttgttat---tgtgtagATTGTTTCTTCGCTTTGAAGGTATGGAACGCACAGAAAGCAGGTGCTTCTGCTGTTCTTGTAGCTGATAATGTTGATGAGCCTTTGATTACAATGGATAC
| || || ||| || | | || | | | || || | ||| | | || | || | || ||| ||||| ||||||||||| ||||| || ||||| || |||||||||||||||||||| || || ||||||| ||||| || ||||| ||||| ||
gtaacatttctactttttctatttttcttttctcccaatttggaacaccaaatctaataccaatactattttcatctttatcatgtggaggcagGTTGCTTCTTTGCTTTGAAGGTCTGGAATGCCCAGAAGGCTGGTGCTTCTGCTGTTCTTGTTGCCGACGATGTTGAGGAGCCCTTAATTACTATGGACAC
upper sequence: AT2G14720.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: EFJ30872 (Selaginella moellendorffii), 3'ss of exon 1
gtactttcatcttttcttcaatcgatttcgttagattcgattccttagggtttttatacttgtggttgttattgtgtagATTGTTTCTTCGCTTTGAAGGTATGGAACGCACAGAAAGCAGGTGCTTCTGCTGTTCTTGTAGCTGATAATGTTGATGAGCCTTTGATTACAATGGATAC
| | ||||| || ||| | || | | || | |||| | | |||||||| ||||||||||||||| ||||||||||| || || || || ||||||| || || || ||| || |||||| |||| || ||||| |
-------------gtgagcccacgattc--ttccattttgctgctcaattctactaaatttgttctc-------tccagATTGTTACTTCGCTTTGAAGGTTTGGAACGCACAAAACGCTGGAGCGGCTGCTGTACTGGTTGCGGATGATAGATCCGAGCCTCTGATCACCATGGACTC
upper sequence: AT2G14720.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: EFJ22768 (Selaginella moellendorffii), 3'ss of exon 1
gtactttcatcttttcttcaatcgatttcgttagattcgattccttagggtttttatacttgtggttgttattgtgtagATTGTTTCTTCGCTTTGAAGGTATGGAACGCACAGAAAGCAGGTGCTTCTGCTGTTCTTGTAGCTGATAATGTTGATGAGCCTTTGATTACAATGGATAC
|| || | | ||| | || |||| | || | | |||||||| ||||||||||||||| ||||||||||| || || || || ||||||| || || || ||| || |||||| |||| || ||||| |
-----------------------------gtgagctcacgattctttgctcacttctact---aaatttttctctccagATTGTTACTTCGCTTTGAAGGTTTGGAACGCACAAAACGCTGGAGCGGCTGCTGTACTGGTTGCGGATGATAGAACCGAGCCTCTGATCACCATGGACTCMapped 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|124821754|gb|EH906620.1|EH906620EST: CTTTACCTACTTTCCTCTTAGTTGATCGTGGAG ATTGTTTCTTCGCTTTGAAGGTATGGAACGCACAGAAAGCAGGTGCTTACT
genomic: CTTTACCTACTTTCCTCTTAGTTGATCGTGGAGgtactttcat ... tattgtgtagATTGTTTCTTCGCTTTGAAGGTATGGAACGCACAGAAAGCAGGTGCTT-CT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttcgttagattcgattccttagggtttttatacttgtggttgttattgtgtagATTGTTTCTTCGCTTTGAAGGTATGGAACGCACAGAAAGCAGGTGCTTCTGCTGTTCTTGTAGCTGATAATGTTGATGAGCCTTTGATTACAATGGATAC
tttttatactt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactttcatcttttcttcaatcgatttcgttagattcgattccttagggtttttatacttgtggttgttattgtgtagATTGTTTCTTCGCTTTGAAGGTATGGAACGCACAGAAAGCAGGTGCTTCTGCTGTTCTTGTAGCTGATAATGTTGATGAGCCTTTGATTACAATGGATAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT