Sequence
atgc intronic sequence ATGC exonic sequencegttggtattactcggagataggcacatgctaatttctatttctgtatggtgccattggaataagtacaaagatcatttatgttttcagGGAGGTTCAGACATTTACCTGTGGTGGAGAATGGAGAAGTTGTTGCCATACTTGACATAGCAAAGTGTTTGTATGATGCCATTGCCCGTATGGAAAGGAA
Basic information
species | Glycine max |
transcript | GLYMA08G01470.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G01470.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os01g69900.1 (Oryza sativa), 3'ss of exon 3
gttggtattactcggagataggcacatgctaatttctatttctgtatggtgccattggaataagtacaaagatcatttatgttttcagGGAGGTTCAGACATTTACCTGTGGTGGAGAATGGAGAAGTTGTTGCCATACTTGACATAGCAAAGTGTTTGTATGATGCCATTGCCCGTATGGAAAGGAA
|| ||| | | | | || | || | | || | | | ||| | | || | | || |||| | |||||||||||||||||| |||||||| || ||||| |||| | || |||||||| ||||| |||||||||| ||||| || |||||||||
gtgggtgaagtcccaa---acactatctctggtccct-tgtttgcac--ttctcttgattttcctgagaatgtatcacttcattccagGTAAGTTCAGACATTTACCTGTCGTGGAGAACGGTGAAGTCATTGCACTGCTCGACATAGCCAAGTGCCTGTATGATGCTATTGCGCGAATGGAAAGGGC
upper sequence: GLYMA08G01470.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G50530.1 (Arabidopsis thaliana), 3'ss of exon 4
gttggtattactcggagataggcacatgctaatttctatttctgtatggtgcc---attggaataagtaca-aagatcatttatg--ttttcagGGAGGTTCAGACATTTACCTGTGGTGGAGAATGGAGAAGTTGTTGCCATACTTGACATAGCAAAGTGTTTGTATGATGCCATTGCCCGTATGGAAAGGAA
|| || || | || | ||| | |||| | |||| || | | | || | | |||| | ||| |||||||| || ||||||||||||||||||||| | || | || || || |||||||||||||||||||| |||||||| ||||||||
-----------------------gtttgttatttcttgttcttttataagttctttgttggtcttggtacttgagctgactagtggatatgcagGCAAGTTTAGACATTTGCCGGTGGTGGAGAATGGAGAAGTTATCGCGCTTCTCGATATTGCAAAGTGTTTGTATGATGCTATTGCCCGCATGGAAAGATC
upper sequence: GLYMA08G01470.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G63490.1 (Arabidopsis thaliana), 3'ss of exon 4
------gttggtattactcggagataggcacatgctaatt-tct-atttctgtatggtgccattggaataagtacaaagatca--tttatgtttt-cagGGAGGTTCAGACATTTACCTGTGGTGGAGAATGGAGAAGTTGTTGCCATACTTGACATAGCAAAGTGTTTGTATGATGCCATTGCCCGTATGGAAAGGAA
| | || | | | || || || | || ||| ||| |||| | | | ||| || | | | | ||| | | |||| | ||||||||||| || || || || ||||| |||||| |||| || | || ||||||||||||||||||||||| ||||| |||||||| |||
gtttgtctcattgtttttaagctagagaaacttgatgtttatctgattgctgtgtctagatcctt-aatgaggctatatcttaaccttacctactgcagGAAAATTCAGACATTTGCCGGTTGTTGAAAATGGCGAAGTTATTGCTTTATTAGATATAGCAAAGTGTTTGTATGATGCAATTGCTCGTATGGAGAGGGC
upper sequence: GLYMA08G01470.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv17s0000g01200.t01 (Vitis vinifera), 3'ss of exon 4
gttggtattactcggagataggcacatgctaatt---tctatttctgtatggtgccattgg---aataagtacaaagatcatttatgttttcagGGAGGTTCAGACATTTACCTGTGGTGGAGAATGGAGAAGTTGTTGCCATACTTGACATAGCAAAGTGTTTGTATGATGCCATTGCCCGTATGGAAAGGAA
|||| | || | || | | || || || | ||| | | | | | | | | || | | |||| ||| |||| | |||||||||||| ||||| || |||||||| || || |||| |||| ||||||||||||||||| |||||||| ||||| || ||||| |||
gttgctgataacctgaaaaccatgtttactttttccatccaacatgctattctacaacttgccaactgaacactgtgctgattt---tttgcagGAAAGTTCAGACATTTGCCTGTTGTAGAGAATGGGGAGGTCATTGCTTTACTAGACATAGCAAAGTGTTTATATGATGCTATTGCTCGAATGGAGAGGGC
upper sequence: GLYMA08G01470.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S86_24V6.1 (Physcomitrella patens), 3'ss of exon 3
--------gttg-gtattactcggagataggcacatgctaatttctatttctgtatggtgccattggaataagt-acaaagatcatttatgtttt---cagGGAGGTTCAGACATTTACCTGTGGTGGAGAATGGAGAAGTTGTTGCCATACTTGACATAGCAAAGTGTTTGTATGATGCCATTGCCCGTATGGAAAGGAA
|| | ||| | | | ||| || | | | | | | ||||| | || | | | | | || | ||| |||| | |||||| ||||| ||||| |||||||||||||| |||||||| | || || || |||| ||| | || ||||| ||||| || ||||| ||
ttgacttcattacgaatttcatgaaaataagcgta-accatatattcctagtgtattgcaagatgacagcttctcatatattatatctcaatttgtgacagGCAAGTTCAGGCATTTGCCTGTAGTGGAGAATGGAGAGGTTGTTGCACTTCTGGATATCACAAAATGTCTCTACGATGCTATTGCTCGCATGGAGCGGGC
upper sequence: GLYMA08G01470.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S87_48V6.4 (Physcomitrella patens), 3'ss of exon 3
---gttggtattactcggagataggcacatgctaatttct-----atttctgtatggtgccattggaataagtacaaagatcatttatg----ttttcagGGAGGTTCAGACATTTACCTGTGGTGGAGAATGGAGAAGTTGTTGCCATACTTGACATAGCAAAGTGTTTGTATGATGCCATTGCCCGTATGGAAAGGAA
| ||| | | || | | |||| | ||| | | | || || || | | | || | | || ||| | |||| | |||||| ||||||||||| |||||| |||||||| || || || | |||||| |||||||| | || |||||||| ||||||||||| ||
tacactttaatttgttcgcgacaagttagtgctgttgtcttacacagatgagcatagtcacaatcttgttatgctaatgctgcttgatgggccctcacagGCAAGTTCAGGCATTTACCTGTAGTGGAGGGAGGAGAAGTGGTAGCACTATTAGACATAACAAAGTGTCTCTACGATGCCATCGCCCGTATGGAGCGGGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctatttctgtatggtgccattggaataagtacaaagatcatttatgttttcagGGAGGTTCAGACATTTACCTGTGGTGGAGAATGGAGAAGTTGTTGCCATACTTGACATAGCAAAGTGTTTGTATGATGCCATTGCCCGTATGGAAAGGAA
tgttttc CT-rich tract
atcatttatgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttggtattactcggagataggcacatgctaatttctatttctgtatggtgccattggaataagtacaaagatcatttatgttttcagGGAGGTTCAGACATTTACCTGTGGTGGAGAATGGAGAAGTTGTTGCCATACTTGACATAGCAAAGTGTTTGTATGATGCCATTGCCCGTATGGAAAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA