Sequence
atgc intronic sequence ATGC exonic sequence...aaaattatgaatagctccgttttttaatagtattttaaactccttgtcatagctgttctgttttcttcaaatgctaagtgggatttcttttttatggcagCACAGCATTCCTTATAGGTCCTAAAAGGCAAGTGACAATGATGCTGGATCCTGCCCGTATATATGCAACAGCCATATACATTGCAA
Basic information
species | Glycine max |
transcript | GLYMA09G28470.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G28470.2 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os02g35640.1 (Oryza sativa), 3'ss of exon 3
-----aaaattatga-atagctccgttttttaatagtattttaaactccttgtcatagctgttctgttttcttcaaatgctaagtgggatttcttttttatggcagCACAGCATTCCTTATAGGTCCTAAAAGGCAAGTGACAATGATGCTGGATCCTGCCCGTATATATGCAACAGCCATATACATTGCAA--------------
|| ||| || || ||||| | || | | ||| || | | | | || | | |||| | | | |||||| || ||| ||||| ||||| || ||||||||||| ||||||||| | |||||||| ||| ||| || ||||||||||| || ||||||||||||
actgtaatattctgccatttctccgctaggtatttatctttgaagccaccaagtct---ttttttactcatgtcaactaatga-tgggatcatttgttt--ggcagTACAGCGTTTCTTATAGGTCCCAAAAGGCAATTTGACATGATGCTTGATTCTGTGCGGATATATGCAACTGCTGTATACATTGCAAGCATCATAATTGCT
upper sequence: GLYMA09G28470.2 (Glycine max), 3'ss of exon 3
lower sequence: AT5G23550.1 (Arabidopsis thaliana), 3'ss of exon 3
---------aaaattatgaatagctccgtttttta----atagtattttaaactccttgt-catagctgttctgttttcttc-------------aaatgctaagtgggatttc--ttttttatggcagCACAGCATTCCTTATAGGTCCTAAAAGGCAAGTGACAATGATGCTGGATCCTGCCCGTATATATGCAACAGCCATATACATTGCAA--------------
|||| || ||||| | | || || || | | || || ||| | || |||| || ||| || ||||| || || |||| |||||||||||||||||||||||||| || | |||| ||||| |||||||| || || || ||||| || || || || | || | ||||
gttcgtattggaattttgtgtagcttcttgttatattgcattggtgtcgcaattctgtgtgtacagtatttctccatttttctctctttgttcctggattttaagtttcatgtcacttttgtatggcagCACAGCATTCCTTATAGGCCCACAGCGGCAGGTGACTATGATGCTTGACCCAGCTCGTATCTACGCTACTGCATTGTATCTAGCAAGCATTATCATTGCC
upper sequence: GLYMA09G28470.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv07s0130g00230.t01 (Vitis vinifera), 3'ss of exon 3
aaaattatgaatagctccgttttttaatagtatttta--aactccttgtcatagctgttctg--ttttcttcaaatgctaagtgggatttcttttttatggcagCACAGCATTCCTTATAGGTCCTAAAAGGCAAGTGACAATGATGCTGGATCCTGCCCGTATATATGCAACAGCCATATACATTGCAA--------------
| | | || |||| || | | || | | || || | || || | | |||| ||||||||| ||| | |||| |||||||||||||||||||| ||||| || ||| |||||||||| |||||||| || |||| ||||| |||||||||||||||||| ||||||
---agctttcttctttcttttttgtactcattttctgtgggttttttttccctttttttttgggtgtatttcagatgctaagttggagtg-ttttgtatggcagCACAGCATTCCTCATAGGCCCAAAACGGCAAGTGACCATGATGCTTGACCCTGTTCGTATTTATGCAACAGCCATATACCTTGCAAGTATAATAATTGCCMapped 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|31306731|gb|CD391934.1|CD391934EST: ATCAAGTTTGCGATAGCATTCACTCTTGGTAATTTGCTTTCACTTGGAAG CACAGCATTCCTTATAGGTCCTAAAAGGCAAGTGACAATGATGCTTGATCC
genomic: ATCAAGTTTGCGATAGCATTCACTCTTGGTAATTTGCTTTCACTTGGAAGgtatgttctg ... tttatggcagCACAGCATTCCTTATAGGTCCTAAAAGGCAAGTGACAATGATGCTGGATCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtcatagctgttctgttttcttcaaatgctaagtgggatttcttttttatggcagCACAGCATTCCTTATAGGTCCTAAAAGGCAAGTGACAATGATGCTGGATCCTGCCCGTATATATGCAACAGCCATATACATTGCAA
tttcttttttat CT-rich tract
atttcttttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaattatgaatagctccgttttttaatagtattttaaactccttgtcatagctgttctgttttcttcaaatgctaagtgggatttcttttttatggcagCACAGCATTCCTTATAGGTCCTAAAAGGCAAGTGACAATGATGCTGGATCCTGCCCGTATATATGCAACAGCCATATACATTGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA