Sequence
atgc intronic sequence ATGC exonic sequence...ttgcattgttaggtgaacacttttaaggaaatttcaatttctcttctctgttatcttctcccttatattggatatcttatagatatatttttaatgtcagGTGAGTCACCATCCCCCAATGAGTGCTGGGCATGCTGAGAATGAGCATTTTACATATGATGTGACTTCAAAGTTAAAGACTAAGTTTTTGGGAAATTCTG
Basic information
species | Glycine max |
transcript | GLYMA15G04210.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G04210.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G114126_T01 (Zea mays), 3'ss of exon 5
ttgcattgttaggtgaacacttttaaggaaatttcaatttct-cttctctgttatcttctcccttata-ttggatatcttatagatatatttttaatgtcagGTGAGTCACCATCCCCCAATGAGTGCTGGGCATGCTGAGAATGAGCATTTTACATATGATGTGACTTCAAAGTTAAAGACTAAGTTTTTGGGAAATTCTG
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-gtcggtgatacgaatgtcatcgcagattaacttgaacggagacaactttgtcaacaaattttttctaattatgtattttgtactctcattttta---tcagGTAAGCCATCATCCCCCAATGGGTGCTGCTCACTGTGAGAATGAGCATTTTACTTATGATATCACGTCTAAGGTGAAGACAAAGTTCTTGGGAAATTCAT
upper sequence: GLYMA15G04210.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G174644_T01 (Zea mays), 3'ss of exon 5
ttgcattgttaggtgaacacttttaaggaaatttcaatttctcttctctgttatcttctcccttatattggatatcttatagatatatttttaatgtcagGTGAGTCACCATCCCCCAATGAGTGCTGGGCATGCTGAGAATGAGCATTTTACATATGATGTGACTTCAAAGTTAAAGACTAAGTTTTTGGGAAATTCTG
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---gttggtgatatgaatgtcattgcagatatcttgaatgga-------gacagctttgtcaacaaattttgctaattatgcatacccttattttgtcagGTAAGCCATCATCCCCCAATGGGTGTTGCTCACTGCGAGAATGAACATTTTACTTACGATATCACGTCTAAGTTGAAGACCAAGTTTTTGGGAAATTCAG
upper sequence: GLYMA15G04210.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv06s0004g04930.t01 (Vitis vinifera), 3'ss of exon 5
ttgcattgttaggtgaacacttttaaggaaatttcaatttctcttctctgttatcttctcc----cttatattggatatcttatagatatatttttaatgtcagGTGAGTCACCATCCCCCAATGAGTGCTGGGCATGCTGAGAATGAGCATTTTACATATGATGTGACTTCAAAGTTAAAGACTAAGTTTTTGGGAAATTCTG
|| | || | | | ||||| ||| | | | | || ||| || | ||| ||| || | | | |||| || |||||| || || ||||| || |||||||||||||||||||| ||||||||||| || ||||| || || ||||| ||||| || || ||||| || || |
----atctggatgttctctcatggaaggatgcttcctcatgattattgttttctctgttctaaagttcataatggtaatgtgtctgcattcattttgatttcagGTCAGCCATCATCCTCCGATGAGTGCTGGGCATGCTGAAAATGAGCATTTCACTTATGAAGTTACATCAAAATTAAAAACCAAATTTTTAGGGAACTTCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctctgttatcttctcccttatattggatatcttatagatatatttttaatgtcagGTGAGTCACCATCCCCCAATGAGTGCTGGGCATGCTGAGAATGAGCATTTTACATATGATGTGACTTCAAAGTTAAAGACTAAGTTTTTGGGAAATTCTG
ttttaat putative branch site (score: 3)
tattttt CT-rich tract
ttatattggatatctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgcattgttaggtgaacacttttaaggaaatttcaatttctcttctctgttatcttctcccttatattggatatcttatagatatatttttaatgtcagGTGAGTCACCATCCCCCAATGAGTGCTGGGCATGCTGAGAATGAGCATTTTACATATGATGTGACTTCAAAGTTAAAGACTAAGTTTTTGGGAAATTCTG
-tgcattg