Sequence
atgc intronic sequence ATGC exonic sequencegttgactttctttttctctttctaggttatgctcacgtattaagtcaggatgagtcatgacattaaaatctgttgctttctctatagCTTCTTTGGGTAAATCTTATCATGGATACTCTGGGAGCACTAGCCCTGGCAACTGAACCACCAACTGATCACCTCATGGATCGATCCCCAGTGGGTCGAA
Basic information
species | Glycine max |
transcript | GLYMA15G18180.1 |
intron # | 26 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G18180.1 (Glycine max), 3'ss of exon 26
lower sequence: AT5G57110.2 (Arabidopsis thaliana), 3'ss of exon 28
--------gttgactttctttttctctttctaggttatgctcacgtattaagtcaggatgagtcatgacattaaaatctgttgctttctcta-----tagCTTCTTTGGGTAAATCTTATCATGGATACTCTGGGAGCACTAGCCCTGGCAACTGAACCACCAACTGATCACCTCATGGATCGATCCCCAGTGGGTCGAA
| | ||| |||||| | | ||| | ||| | | || ||| ||| | || || | ||||| || ||||||| ||||| ||||| || ||||| ||||| |||||| | || |||| ||||||||||| |||||||||||||||| | | ||||| || |||
gtttgagtttctgttgcatttagctctttttgaatatctctctctctctaaat-attataagtttgctcat--atatttggcgttttctttaacatacagCTTCTCTGGGTTAATCTGATAATGGACACTCTTGGAGCATTGGCTTTGGCTACTGAACCACCCACTGATCACCTCATGGGGAGGCCTCCAGTTGGCAGAA
upper sequence: GLYMA15G18180.1 (Glycine max), 3'ss of exon 26
lower sequence: AT4G29900.1 (Arabidopsis thaliana), 3'ss of exon 28
----------gttgactttctttttctctttctaggttatgctcacgtattaagtcaggatgagtcatgacattaaaatctgttgctt-tctctatagCTTCTTTGGGTAAATCTTATCATGGATACTCTGGGAGCACTAGCCCTGGCAACTGAACCACCAACTGATCACCTCATGGATCGATCCCCAGTGGGTCGAA
|| | || | ||||||||| | | | ||||| | | || | || | || | | ||| || | ||||| |||||||| |||||||| ||||||||||| || || || || | || ||||| |||||||| |||||| | ||||||||| | || || || |||
gttcgaaatagtagttttatactctctctttctcatctgcacaaaagtattcacttcagaa----cttggtaaaaagtcttatcccttacctatgtagCTCCTTTGGGTCAATCTTATAATGGATACTCTTGGGGCTCTTGCTTTAGCCACTGAGCCACCAACCGATCACTTAATGGATCGAGCGCCTGTTGGCAGAA
upper sequence: GLYMA15G18180.1 (Glycine max), 3'ss of exon 26
lower sequence: Vv11s0052g00320.t01 (Vitis vinifera), 3'ss of exon 29
----gttgactttctttttctctttctaggttatgctcacgtattaagtcaggatgagtcatgacattaaaatctgttgctttctctatagCTTCTTTGGGTAAATCTTATCATGGATACTCTGGGAGCACTAGCCCTGGCAACTGAACCACCAACTGATCACCTCATGGATCGATCCCCAGTGGGTCGAA
|| | | | || || ||| | | | ||||| ||| | | | | | | |||| || |||| || ||||| |||||||||||||||||||| |||||||| || |||| |||||||||||||| |||||||| ||| | | | ||||| |||||||
gttggtggcccacccattgctgcctcttgagttgacagttctattatgtcgtctcatttgtttaactctgtgttgtctactttgcttacagCTCCTCTGGGTTAATCTTATCATGGATACTCTTGGAGCACTTGCATTGGCCACTGAACCACCAACAGATCACCTGATGCACAGGCCTCCAGTTGGTCGAA
upper sequence: GLYMA15G18180.1 (Glycine max), 3'ss of exon 26
lower sequence: EFJ22392 (Selaginella moellendorffii), 3'ss of exon 23
gttgactttctttttctctttctaggttatgctcacgtattaagtcaggatgagtcatgacattaaaatctgttgctttctctatagCTTCTTTGGGTAAATCTTATCATGGATACTCTGGGAGCACTAGCCCTGGCAACTGAACCACCAACTGATCACCTCATGGATCGATCCCCAGTGGGTCGAA
| | ||| || | | |||| | | | | | || |||| |||| ||||||||||||||||| ||||||||| ||||||| || || | || ||||||||||| || || || | |||||| | | || ||||| || |
-------------------------------gtgagtcgttatctctcgtt---tcatctgttcagtttataagtcgttttctacagCTGCTTTGGGTAAATCTTATTATGGATACTTTGGGAGCGCTCGCTTTAGCCACTGAACCACCTACAGACGACTTAATGGATAGGCCGCCCGTGGGACGCA
upper sequence: GLYMA15G18180.1 (Glycine max), 3'ss of exon 26
lower sequence: EFJ25508 (Selaginella moellendorffii), 3'ss of exon 24
gttgactttctttttctctttctaggttatgctcacgtattaagtcaggatgagtcatgacattaa---aatctgttgct--ttctctatagCTTCTTTGGGTAAATCTTATCATGGATACTCTGGGAGCACTAGCCCTGGCAACTGAACCACCAACTGATCACCTCATGGATCGATCCCCAGTGGGTCGAA
| |||| | || || | ||| | | | | | || |||| |||| ||||||||||||||||| ||||||||| ||||||| || || | || ||||| ||||| || || || | |||||| | | || ||||| || |
---------------------------------------gtgagtcggtatctctcgtttcatctgttcagtttataagtcgttttctacagCTGCTTTGGGTAAATCTTATTATGGATACTTTGGGAGCGCTCGCTTTAGCCACTGAGCCACCTACAGACGACTTAATGGATAGGCCGCCCGTGGGACGCAMapped 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|23729217|gb|BU762697.1|BU762697EST: ATGTTGTTGCTGCTATTTCATCTGGTGATGTTCCATTAAATGCAGTGCAA CTTCTTTGGGTAAATCTTATCATGGATACTCTGGGAGCACTAGACCTGGTA
genomic: ATGTTGTTGCTGCTATTTCATCTGGTGATGTTCCATTAAATGCAGTGCAGgttgactttc ... ttctctatagCTTCTTTGGGTAAATCTTATCATGGATACTCTGGGAGCACTAGCCCTGGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcacgtattaagtcaggatgagtcatgacattaaaatctgttgctttctctatagCTTCTTTGGGTAAATCTTATCATGGATACTCTGGGAGCACTAGCCCTGGCAACTGAACCACCAACTGATCACCTCATGGATCGATCCCCAGTGGGTCGAA
tgctcac putative branch site (score: 2)
tctgttgctttctct putative PPT
acattaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgactttctttttctctttctaggttatgctcacgtattaagtcaggatgagtcatgacattaaaatctgttgctttctctatagCTTCTTTGGGTAAATCTTATCATGGATACTCTGGGAGCACTAGCCCTGGCAACTGAACCACCAACTGATCACCTCATGGATCGATCCCCAGTGGGTCGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA