Sequence
atgc intronic sequence ATGC exonic sequencegtataatttgtaatatttttgtgtgcttcagagatttgtgcttgccacattattgaatccaacttatgttatgaaaacagataatttctggtgtggagtactgtcacagGAATATGGTGGTTCATAGAGACCTGAAGCCTGAGAATTTACTCTTGGACTCAAAATTTAACATCAAGATTGCTGATTTTGGGTTGAGCAACATCATGCGT
Basic information
species | Glycine max |
transcript | GLYMA13G05700.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G05700.2 (Glycine max), 3'ss of exon 3
lower sequence: AT3G29160.3 (Arabidopsis thaliana), 3'ss of exon 3
-------------gtataatttgtaatatttttgt-gtgcttcag---agatttgtgcttgccacattattgaatccaacttatgttatgaaaacagataatttctggtgtggagtactgtcacagGAATATGGTGGTTCATAGAGACCTGAAGCCTGAGAATTTACTCTTGGACTCAAAATTTAACATCAAGATTGCTGATTTTGGGTTGAGCAACATCATGCGT
|| || | | | ||||| | | ||| | |||| | ||| | ||| | ||| || | || ||||||| |||||||| |||||||| || | |||||||| || ||||||||||||||||||||||||||||| ||||| || | | ||| || |||||||
gtttgttttctctttaccataaccagtgtgtttgtagcgtatcatgtcatctttgagtttgagtgttgtttgtgtttgactcatatcc---gaatagATAATATCTGGTGTAGAGTACTGCCATCGTAATATGGTTGTCCATAGAGACCTGAAGCCTGAGAATTTACTATTGGATTCGAGGTGTAATATTAAGATTG-----------------------------
upper sequence: GLYMA13G05700.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0108g01230.t01 (Vitis vinifera), 3'ss of exon 3
-------------------------------------gtataatttgtaatattt--ttgtgtgcttcagagatttgtg--cttgccacattattgaatccaacttatgttatga--aaacagataatttctggtgtggagtactgtcacagGAATATGGTGGTTCATAGAGACCTGAAGCCTGAGAATTTACTCTTGGACTCAAAATTTAACATCAAGATTGCTGATTTTGGGTTGAGCAACATCATGCGT
| | || | | | || | | |||||| | ||| | || || || | || |||||||||||||||| ||||||||||| |||||||||||||| ||||| ||||| || || |||||||| || || ||||| || |||| || | |||||||
gtagaaattattattttcctatgaaatttgtccccctttttccttcatctctctcaaccgagtcgatagaatgtttgtgaattaaccataaatttacatttggtcaattctttgcctgaacagATAATTTCTGGCGTGGAGTACTGCCACAGGAATATGGTAGTTCACAGAGATCTTAAACCTGAGAACTTGCTTTTGGATTCCAAATGCAATGTGAAGATTG-----------------------------
upper sequence: GLYMA13G05700.2 (Glycine max), 3'ss of exon 3
lower sequence: EFJ35371 (Selaginella moellendorffii), 3'ss of exon 2
gtataatttgtaatatttttgtgtgcttcagagatttgtgcttgccacattattgaatccaacttatgttatgaaaacagataatttctggtgtggagtactgtcacagGAATATGGTGGTTCATAGAGACCTGAAGCCTGAGAATTTACTCTTGGACTCAAAATTTAACATCAAGATTGCTGATTTTGGGTTGAGCAACATCATGCGT
| ||||| | | | ||| | | | ||||| |||| | | ||||| |||||||| ||||| || |||||||| ||||||||||||||| | || |||||||| || ||| | | | ||||| | | || | |||||||
------------------gttcgtgctccttcgcctggtg-----aagaaaactgaatataactcgcac-acatcaccagATCATTTCTGGAGTGGAATATTGTCACAGAAATATGGTGGTTCATCGTGATCTGAAGCCAGAAAATCTGTTGCTTGACTCTAGGTGCAATGTGAAGATTG-----------------------------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|209717789|gb|BW666062.1|BW666062EST: TAGAGAAGGGTCGGCTGCAAGAGGATGAAGCCCGTCANNNNNNNCAGCAG GAATATGGTGGTTCATAGAGACCTGAAGCCTGAGAATTTACTCTTGGACTC
genomic: TAGAGAAGGGTCGGCTGCAAGAGGATGAAGCCCGTCATTTTTTTCAGCAGgtataatttg ... actgtcacagGAATATGGTGGTTCATAGAGACCTGAAGCCTGAGAATTTACTCTTGGACTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaatccaacttatgttatgaaaacagataatttctggtgtggagtactgtcacagGAATATGGTGGTTCATAGAGACCTGAAGCCTGAGAATTTACTCTTGGACTCAAAATTTAACATCAAGATTGCTGATTTTGGGTTGAGCAACATCATGCGT
ttatgttatgaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtataatttgtaatatttttgtgtgcttcagagatttgtgcttgccacattattgaatccaacttatgttatgaaaacagataatttctggtgtggagtactgtcacagGAATATGGTGGTTCATAGAGACCTGAAGCCTGAGAATTTACTCTTGGACTCAAAATTTAACATCAAGATTGCTGATTTTGGGTTGAGCAACATCATGCGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT