Sequence
atgc intronic sequence ATGC exonic sequencegtaaacagatgtctggcaatctattgtctctgctttttgaatcatagattattttcttttcaattcattaatcttctttaatttctgaataacaattgatagtgagtagggttctgctattgttaaggtgtaatattcactctttacattgtgctttgttactgcagGACAGTGTTGAGGCAACTGCCGAAGTTTCAAAGACTTTCAATGAAAAAATTAGAAAGTACTGTGACATGACACTCTTATCATGTGCCTATGCTGGAACTG
Basic information
species | Glycine max |
transcript | GLYMA06G44340.1 |
intron # | 17 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G44340.1 (Glycine max), 3'ss of exon 17
lower sequence: AT2G20580.1 (Arabidopsis thaliana), 3'ss of exon 15
gtaaacagatgtctggcaatctattgtctctgctttttgaatcatagattattttcttttcaattcattaatcttctttaatttctgaataacaattgatagtgagtagggttctgctattgttaaggtgtaatattcactctttacattgtgctttgttactgcagGACAGTGTTGAGGCAACTGCCGAAGTTTCAAAGACTTTCAATGAAAAAATTAGAAAGTACTGTGACATGACACTCTTATCATGTGCCTATGCTGGAACTG
| | ||| | |||| | | ||| | || | | ||| |||| | || || ||| || || | | ||| ||||| ||||| ||||| || || |||||||| ||||| |||||||| || ||||||||||| ||||| |||||||| | || ||||| |||||||||||||
---------------------------------------------------------------gttagcaatgtgttttacataatct-cgctctttgttcgtatatcattatttgc-attgcttgac--caacatcaacttgttccaatat------ctac--cagGAAAGTGTAGAGGCTACAGCTGAAGTTTCGAAGACCTTCAATGAGAAGATTAGAAAGTATTGTGATATGACACTTCTTTCTTGTGCTTATGCTGGAACTG
upper sequence: GLYMA06G44340.1 (Glycine max), 3'ss of exon 17
lower sequence: AT4G28470.1 (Arabidopsis thaliana), 3'ss of exon 15
gtaaacagatgtctggcaatctattgtctctgctttttgaatcatagattattttcttttcaattcattaatcttctttaatttctgaataacaattgatagtgagtagggttctgctattgttaaggtgtaatattcactctttacattgtgctttgttactgcagGACAGTGTTGAGGCAACTGCCGAAGTTTCAAAGACTTTCAATGAAAAAATTAGAAAGTACTGTGACATGACACTCTTATCATGTGCCTATGCTGGAACTG
| || | || ||| || ||| | ||| | | | | | | || | || ||| || || | | |||||| ||||| ||||| ||||| |||||||||||||| |||||||| ||||| |||||||| ||||| |||||||| | |||||||| ||||||||||| |
-----------------------------------------------------------gtgggcagccagtcatacttgatt-----atttttcttgttcgtgtacttgatcgttatttccccgattattagttttaacttgttccaatatcga--------gcagGAAAGTGTGGAGGCTACTGCAGAAGTTTCAAAGACGTTCAATGAGAAAATCAGAAAGTATTGTGATATGACACTTCTTTCATGTGCATATGCTGGAACCG
upper sequence: GLYMA06G44340.1 (Glycine max), 3'ss of exon 17
lower sequence: Vv12s0028g03130.t01 (Vitis vinifera), 3'ss of exon 17
gtaaacagatgtctggcaatctattgtctctgctttttgaatcatagattattttcttttcaattcattaatcttctttaatttctgaataacaattgatagtgagtagggttctgctattgttaaggtgtaatattcactctttacattgtgctttgttactgcagGACAGTGTTGAGGCAACTGCCGAAGTTTCAAAGACTTTCAATGAAAAAATTAGAAAGTACTGTGACATGACACTCTTATCATGTGCCTATGCTGGAACTG
|||| | | || | | |||| | | || || || ||| | || | | | | || |||| | ||||| ||||| ||||| ||||| ||||| |||||||| || ||||||||||| ||||| || || || ||||| | | || ||||| |||||||||||||
-----------------------------------------------------------------tatta-tttactgtggtagaaaccatacaacatggaaaattttggaacttgaagtt-ctaaataattctaattatttctggaatccctatttggtgtgacagGAAAGTGTGGAGGCCACTGCTGAAGTGTCAAAGACATTTAATGAAAAAATAAGAAAATATTGCGATATGACGTTGCTTTCTTGTGCATATGCTGGAACTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctgctattgttaaggtgtaatattcactctttacattgtgctttgttactgcagGACAGTGTTGAGGCAACTGCCGAAGTTTCAAAGACTTTCAATGAAAAAATTAGAAAGTACTGTGACATGACACTCTTATCATGTGCCTATGCTGGAACTG
ctttgtt CT-rich tract
tattgttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaacagatgtctggcaatctattgtctctgctttttgaatcatagattattttcttttcaattcattaatcttctttaatttctgaataacaattgatagtgagtagggttctgctattgttaaggtgtaatattcactctttacattgtgctttgttactgcagGACAGTGTTGAGGCAACTGCCGAAGTTTCAAAGACTTTCAATGAAAAAATTAGAAAGTACTGTGACATGACACTCTTATCATGTGCCTATGCTGGAACTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA