Sequence
atgc intronic sequence ATGC exonic sequence...tgataggtttcaaatatgatttttcattgttcttgtaatatagacatgacaatggattgtaccatgcatgacatgcaaattaaattcttaaatgtcgcagGAGAAGGTACAGGGCTGCTTCGCCTCCATAGCACATACCGTCATGATCTTAAGATATACAGCTCTGATGAGGGTCGTGTGCAG
Basic information
species | Glycine max |
transcript | GLYMA09G37610.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G37610.1 (Glycine max), 3'ss of exon 15
lower sequence: AT3G01310.1 (Arabidopsis thaliana), 3'ss of exon 18
-----------tgataggttt-caaatatgatttttcattgttcttgtaatatagacatgacaatggattgtaccatgcatgacatgcaaattaaattcttaaatgtcgcagGAGAAGGTACAGGGCTGCTTCGCCTCCATAGCACATACCGTCATGATCTTAAGATATACAGCTCTGATGAGGGTCGTGTGCAG
|||| || | | | | ||| || | || || | || | |||| || | || | | | || | || | | ||||| ||||| || || ||||||| |||||||| || ||||||||||| ||||| || ||||||||||| ||||| ||||| |||
gtaagggaacttgatctacttatatttgttactttccacaggagtt-tagtgtactcgtgacgatcagt-atattttctaagtatctcacgatgaaatggca-----tgcagGTGAAGGGACTGGTTTGCTTCGTCTCCATAGTACGTACCGTCATGACCTTAAAATTTACAGCTCTGACGAGGGACGTGTTCAG
upper sequence: GLYMA09G37610.1 (Glycine max), 3'ss of exon 15
lower sequence: AT5G15070.2 (Arabidopsis thaliana), 3'ss of exon 18
-------------------------------------------------tgataggtttcaaatatgatttttcattgttcttgtaatatagacatgacaatggat-tgtacc-atgcatgacatgcaaattaaattcttaa---atg-tcgcagGAGAAGGTACAGGGCTGCTTCGCCTCCATAGCACATACCGTCATGATCTTAAGATATACAGCTCTGATGAGGGTCGTGTGCAG
| | | || ||| ||||| | | | ||| || || || | | || | | | ||| ||| || ||| | |||| |||||||| || |||| || |||||||| ||||||||||| || ||||| || ||||||||||| ||||| ||||| |||
gtgacaacacattacctgcttgatttgtccaatcatttcatattctaccttccatatgtctcatacaattttctgaaacagtc-cattgtagttgtgttgatcaatatacatttatttctaagtggttaatgaaaaactggggatatgctttcagGGGAAGGTACCGGTTTGCTCCGTCTCCATAGTACATACCGTCACGACCTTAAAATTTACAGCTCTGACGAGGGACGTGTTCAG
upper sequence: GLYMA09G37610.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 17
tgataggttt-caaatatgatttttcat-tgttcttgtaatatagacatgacaatggattgtaccatgcatgacatgcaaattaaattcttaaatg-tcgcagGAGAAGGTACAGGGCTGCTTCGCCTCCATAGCACATACCGTCATGATCTTAAGATATACAGCTCTGATGAGGGTCGTGTGCAG
|| ||| |||| || | ||| | | | | | || || | | | | ||||| | || | | ||||| ||||| || || ||||||||||| ||||| || || ||||||||||| || || |||||||| |||||||||||||| |||
-aatccttttgtgtggatgaattaatacctgtggtcttcctctgcttctcttggtgatttttttttttttt--tttttaaattgttattgtatgtaattgcagGTGAAGGCACTGGCCTGCTTCGCCTTCATAGTACTTATCGTCATGATCTAAAAATTTACAGCTCAGATGAGGGTCGTGTACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgacaatggattgtaccatgcatgacatgcaaattaaattcttaaatgtcgcagGAGAAGGTACAGGGCTGCTTCGCCTCCATAGCACATACCGTCATGATCTTAAGATATACAGCTCTGATGAGGGTCGTGTGCAG
atgcaaattaaattct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgataggtttcaaatatgatttttcattgttcttgtaatatagacatgacaatggattgtaccatgcatgacatgcaaattaaattcttaaatgtcgcagGAGAAGGTACAGGGCTGCTTCGCCTCCATAGCACATACCGTCATGATCTTAAGATATACAGCTCTGATGAGGGTCGTGTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - gttcttg
- - - - - - - - - - - - - - - - - - - - - -acatgac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acatgca