Sequence
atgc intronic sequence ATGC exonic sequenceTGGTTTACACAGAGTTGCGTAAACCGGAGACGGAGATTAAGCCGTTACAGCTTGACGAGGATTTGCCTGGAATGGGTCAATTCTACTGCTTACACTGCGAgtaagagagattctatgattactctattgacgattcttttggtttatgaaacttttttttagcaaatacattatctttgaattactctatatgacccatttgtttgttttaccttgatatgttttag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G36930.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G36930.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv08s0007g05070.t01 (Vitis vinifera), 5'ss of exon 2
TGGTTTACACAGAGTTGCGTAAACCGGAGACGGAGATTAAGCCGTTACAGCTTGACGAGGATTTGCCTGGAATGGGTCAATTCTACTGCTTACACTGCGAgtaagagagattctatgattactctattgacgattcttttggtttatgaaacttttttttagcaaatacattatctttgaattactctatatgacccatttgtttgttttaccttgatatgttttag
| || || ||| |||| ||||| || | ||||||| ||||| ||||| ||||| |||| ||||||||| ||||||||||| | | || | | || || | || || | || ||| | | ||| ||| || || | | | | | |
--------------CTTAACAAGCCAGAGGGTGAGAAGAAGCCCTTGCCCGTTGACGAAGATTTACCTGGGATGGGCCAATACTACTGCTTGCACTGCGAgtatgtt--ttcctttttcttctgaatcttctctttcctttacctgtgcccaagtttgtaggtttggggtttactttt---ttgtaagatgcaagctaatagaat----------------------
upper sequence: AT2G36930.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: EFJ24939 (Selaginella moellendorffii), 5'ss of exon 1
TGGTTTACACAGAGTTGCGTAAACCGGAGACGGAGATTAAGCCGTTACAGCTTGA--CGAGGATTTGCCTGGAATGGGTCAATTCTACTGCTTACACTGCGAgtaagagagattctatgattactctattgacgattcttttggtttatgaaacttttttttagcaaatacattatctttgaattactctatatgacccatttgtttgttttaccttgatatgttttag
| | | | | || | |||| || ||| |||| || ||||||| | ||||||||||| || ||||||||||| || ||||||| | | |||| || | | ||||||| | | | || ||| ||
--AGGTGAAGAATTTGGAGTCGTCTATGGACGAAGGGGCGCCCGCGCGAGCTCGAGACGAGGATCTCCCTGGAATGGGGCAGTTCTACTGCTTGCATTGCGAgttaag------cgccgattcct-tgtctttcattcttt--ataaacgcttgcttctttcag-----------------------------------------------------------------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|116474212|gb|EG516804.1|EG516804EST: CTTGACGAGGATTTGCCTGGAATGGGTCAATTCTACTGCTTACACTGCGA TCGATACTTCTCCAACGTATCAGTGAGGGATGATCATTTCAAGACTAAGAA
genomic: CTTGACGAGGATTTGCCTGGAATGGGTCAATTCTACTGCTTACACTGCGAgtaagagaga ... tatgttttagTCGATACTTCTCCAACGTATCAGTGAGGGATGATCATTTCAAGACTAAGAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGGTTTACACAGAGTTGCGTAAACCGGAGACGGAGATTAAGCCGTTACAGCTTGACGAGGATTTGCCTGGAATGGGTCAATTCTACTGCTTACACTGCGAgtaagagagattctatgattactctattgacgattcttttggtttatgaaacttttttttagcaaatacattatctttgaattactctatatgacccatttgtttgttttaccttgatatgttttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT