Sequence
atgc intronic sequence ATGC exonic sequencegttggtattacacggagataggcacatgctaattactatttcggtacggtgccctttgaataaatacaaagatgattatgttttcagGGAGGTTCAGACATTTACCTGTGGTGGAGAATGGAGAAGTAGTTGCCATACTTGACATAGCAAAGTGTTTGTATGATGCCATTGCCCGTATGGAAAGGGC
Basic information
species | Glycine max |
transcript | GLYMA05G38140.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G38140.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os01g69900.1 (Oryza sativa), 3'ss of exon 3
gttggtattacacggagataggcacatgctaattactatttcggtacggtgccctttgaataaatacaaagatgattatgt--tttcagGGAGGTTCAGACATTTACCTGTGGTGGAGAATGGAGAAGTAGTTGCCATACTTGACATAGCAAAGTGTTTGTATGATGCCATTGCCCGTATGGAAAGGGC
| | || ||| | | | | | | | |||| | | | || | | || |||| | |||||||||||||||||| |||||||| || ||||| |||| | || |||||||| ||||| |||||||||| ||||| || |||||||||||
-------gtgggtgaagtcccaaacactatctctggtcccttgtttgcacttctcttgattttcctgagaatgtatcacttcattccagGTAAGTTCAGACATTTACCTGTCGTGGAGAACGGTGAAGTCATTGCACTGCTCGACATAGCCAAGTGCCTGTATGATGCTATTGCGCGAATGGAAAGGGC
upper sequence: GLYMA05G38140.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G133621_T02 (Zea mays), 3'ss of exon 3
----gttggtattacacggagataggcacatgctaattactatttcggtacggtgccctttgaataaatacaaagatgattatgttttcagGGAGGTTCAGACATTTACCTGTGGTGGAGAATGGAGAAGTAGTTGCCATACTTGACATAGCAAAGTGTTTGTATGATGCCATTGCCCGTATGGAAAGGGC
|| | | || | || | || || | | || ||| | || | | || || |||| | |||||||||| | ||||| || |||||||| ||||| |||| || || |||||||| ||||| | |||||||| ||||| || |||||||||||
gtccgtgaatgctctgaagatttctgcgcgccttacctatagtcatcttctaatgttgcctga-----tggaaggtatcctttggttccagGTAAGTTCAGACATCTGCCTGTTGTTGAGAATGGTGAAGTCATTGCAATTCTGGACATAGCCAAGTGCCTATATGATGCTATTGCACGGATGGAAAGGGC
upper sequence: GLYMA05G38140.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G50530.1 (Arabidopsis thaliana), 3'ss of exon 4
gttggtattacacggagataggcacatgctaattactatttcggtacggtgccc-tttgaataaatacaaagatgattatgttttcagGGAGGTTCAGACATTTACCTGTGGTGGAGAATGGAGAAGTAGTTGCCATACTTGACATAGCAAAGTGTTTGTATGATGCCATTGCCCGTATGGAAAGGGC
| | | | | || || | | | || | || | | || | || | | | | |||| | ||| |||||||| || |||||||||||||||||||| | || | || || || |||||||||||||||||||| |||||||| |||||||| |
----------------gtttgttat-ttcttgttcttttataagttctttgttggtcttggtacttgagctgactagtggatatgcagGCAAGTTTAGACATTTGCCGGTGGTGGAGAATGGAGAAGTTATCGCGCTTCTCGATATTGCAAAGTGTTTGTATGATGCTATTGCCCGCATGGAAAGATC
upper sequence: GLYMA05G38140.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G63490.1 (Arabidopsis thaliana), 3'ss of exon 4
---------gttggtattacacggagataggcacatgctaatt--actatttcggtacggtgccctttgaataaatacaaagatgattatgttttcagGGAGGTTCAGACATTTACCTGTGGTGGAGAATGGAGAAGTAGTTGCCATACTTGACATAGCAAAGTGTTTGTATGATGCCATTGCCCGTATGGAAAGGGC
||| | ||| | | ||| | || | | | | | | | ||| ||| | | | |||| | ||||||||||| || || || || ||||| ||||| |||| || | || ||||||||||||||||||||||| ||||| |||||||| |||||
gtttgtctcattgtttttaagctagagaaacttgatgtttatctgattgctgtgtctagatccttaatgaggctatatcttaaccttacctactgcagGAAAATTCAGACATTTGCCGGTTGTTGAAAATGGCGAAGTTATTGCTTTATTAGATATAGCAAAGTGTTTGTATGATGCAATTGCTCGTATGGAGAGGGC
upper sequence: GLYMA05G38140.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv17s0000g01200.t01 (Vitis vinifera), 3'ss of exon 4
gttggtattacacggagataggcacatgctaattac---tatttcggtacggtgccctttg---aataaatacaaagatgattatgttttcagGGAGGTTCAGACATTTACCTGTGGTGGAGAATGGAGAAGTAGTTGCCATACTTGACATAGCAAAGTGTTTGTATGATGCCATTGCCCGTATGGAAAGGGC
|||| | || | || | | || || | | | || | | ||| | | || || | ||||| | || |||| | |||||||||||| ||||| || |||||||| || || |||| |||| ||||||||||||||||| |||||||| ||||| || ||||| |||||
gttgctgataacctgaaaaccatgtttactttttccatccaacatgctattctacaacttgccaactgaacactgtgctgatttt--ttgcagGAAAGTTCAGACATTTGCCTGTTGTAGAGAATGGGGAGGTCATTGCTTTACTAGACATAGCAAAGTGTTTATATGATGCTATTGCTCGAATGGAGAGGGC
upper sequence: GLYMA05G38140.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S87_48V6.4 (Physcomitrella patens), 3'ss of exon 3
---gttggtattacacggagataggcacatgctaattact-----atttcggtacggtgccctttgaataaatacaaagatgatt-atg----ttttcagGGAGGTTCAGACATTTACCTGTGGTGGAGAATGGAGAAGTAGTTGCCATACTTGACATAGCAAAGTGTTTGTATGATGCCATTGCCCGTATGGAAAGGGC
| ||| | || | | |||| | || | | | | || | | | | || | || || ||| | |||| | |||||| ||||||||||| |||||| |||||||| || || || | |||||| |||||||| | || |||||||| ||||||||||| ||||
tacactttaatttgttcgcgacaagttagtgctgttgtcttacacagatgagcatagtcacaatcttgttatgctaatgctgcttgatgggccctcacagGCAAGTTCAGGCATTTACCTGTAGTGGAGGGAGGAGAAGTGGTAGCACTATTAGACATAACAAAGTGTCTCTACGATGCCATCGCCCGTATGGAGCGGGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttactatttcggtacggtgccctttgaataaatacaaagatgattatgttttcagGGAGGTTCAGACATTTACCTGTGGTGGAGAATGGAGAAGTAGTTGCCATACTTGACATAGCAAAGTGTTTGTATGATGCCATTGCCCGTATGGAAAGGGC
tgttttc CT-rich tract
aataaatacaaagatg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttggtattacacggagataggcacatgctaattactatttcggtacggtgccctttgaataaatacaaagatgattatgttttcagGGAGGTTCAGACATTTACCTGTGGTGGAGAATGGAGAAGTAGTTGCCATACTTGACATAGCAAAGTGTTTGTATGATGCCATTGCCCGTATGGAAAGGGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG