Sequence
atgc intronic sequence ATGC exonic sequencegtattagaatatatccaagcaaataactctctcaatgatattagtgtgcattctcttgatatataatttttgctgcagTATTTGATGCCATTTGTGGAGAAAGAAAAATACCACATCTCAAAAAGGTGTATGCTTCACCCTGACAATGACATATACAGAGATCAGGAGCAACATAAGT
Basic information
species | Glycine max |
transcript | GLYMA08G43130.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G43130.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os12g13130.4 (Oryza sativa), 3'ss of exon 4
-----------gtattagaatatatccaagcaaataactctctcaatgatattagtgtgcattctcttgatatataatttttgctgcagTATTTGATGCCATTTGTGGAGAAAGAAAAATACCACATCTCAAAAAGGTGTATGCTTCACCCTGACAATGACATATACAGAGATCAGGAGCAACATAAGT
||| | | | || || || | ||| || ||| || ||| | || | ||| | |||||||||||||||| |||||||| ||||| ||||| | || ||| | |||| ||||| |||| |||||||| | | || |||||||| ||||||
gtaaagcatgtgtaacatgaaaatgcccagtgcattggtgcctctataataatatgacagatt-----aacatttcctttcta-tgcagTATTTGATGCCCTTTGTGGAAAAAGAGAAATATGAACTCCCAAGCAAATGTAGACTTCATCCTGGTAATGACATGTTTCGGGAACAGGAGCAGCATAAGA
upper sequence: GLYMA08G43130.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G095323_T03 (Zea mays), 3'ss of exon 3
gtattagaatatatccaagcaaataactctctcaatg-atatta--gtgtgcattctcttgatatata---------atttttgctgcagTATTTGATGCCATTTGTGGAGAAAGAAAAATACCACATCTCAAAAAGGTGTATGCTTCACCCTGACAATGACATATACAGAGATCAGGAGCAACATAAGT
||| ||| | | || | || | | | || ||| | | ||| ||| || || |||| | |||||||||||||||| || ||||| ||||||||||| | || ||| | |||| |||| ||||| |||||||| | | || || ||||||||||||
gtagcaga-tgcaacctaacagttctgtgattttatatgcattgctgcatccataacattgttacatgtcaactcccatttcttatgcagTATTTGATGCCCTTCGTGGAAAAAGAAAAATATGAACTCCCAAGCAAATGTAGACTTCGTCCTGATAATGACATGTTTCGGGAGCAAGAGCAACATAAGA
upper sequence: GLYMA08G43130.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0219g00070.t01 (Vitis vinifera), 3'ss of exon 3
-------------gtattagaatatatccaagcaaataactctctcaatgatattagtgtgcattct--cttgatatataattt--------ttgctgcagTATTTGATGCCATTTGTGGAGAAAGAAAAATACCACATCTCAAAAAGGTGTATGCTTCACCCTGACAATGACATATACAGAGATCAGGAGCAACATAAGT
| || || | | | | | | || || || || |||||| | |||| || ||||| | || ||||||||||||||| |||||||||||||| || || ||||||| || |||| |||||| | ||| |||||| | ||||| ||||||||||| |||||
gtattggtggatgaaactatcatctgtttttggtcactgccccctgaaatat-ttggtgtgcctcactgcttggtacataatctggtgatattttgcgcagTATTTGATGCCCTTTGTGGAGAAAGAGGGCTATCAGATCTCAAGTAGCTGTAGGCTTCATCATGAAAATGACCTGTACAGGGATCAGGAGCAGCATAAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taactctctcaatgatattagtgtgcattctcttgatatataatttttgctgcagTATTTGATGCCATTTGTGGAGAAAGAAAAATACCACATCTCAAAAAGGTGTATGCTTCACCCTGACAATGACATATACAGAGATCAGGAGCAACATAAGT
tttttgct CT-rich tract
attctcttgatatata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattagaatatatccaagcaaataactctctcaatgatattagtgtgcattctcttgatatataatttttgctgcagTATTTGATGCCATTTGTGGAGAAAGAAAAATACCACATCTCAAAAAGGTGTATGCTTCACCCTGACAATGACATATACAGAGATCAGGAGCAACATAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA