Sequence
atgc intronic sequence ATGC exonic sequencegtaagcctattacctggtattacttcctatggaactgatatgctatatggaatattaaactgatacttcctatgttatagCCTGCCCATGAGAAGATTGGAGTTGTTGATGCTCAGTGGATTGTGCACCAAGGTATTCCCTCACTAGGGAATCAG
Basic information
species | Glycine max |
transcript | GLYMA05G30850.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G30850.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv00s0187g00030.t01 (Vitis vinifera), 3'ss of exon 7
--gtaagcctat---tacctggtattacttcc--tatggaactgatatgcta-tatggaatattaaactgatacttccta-----tgttatagCCTGCCCATGAGAAGATTGGAGTTGTTGATGCTCAGTGGATTGTGCACCAAGGTATTCCCTCACTAGGGAATCAG
||||| | ||| | || ||| ||| | | | || || ||| | || | | || ||||||| || | |||||||||||||||| ||||||||||| ||| |||| ||||| | || ||| | ||||||| || ||||| |||
gtactgacctatgtctgcctacttctaattctcttatatcatttgtttgttagcatgcatgatcatattggaacttcctcgtctttgaaacagCCTGCCCATGAGAAAATTGGAGTTGTAGATTCTCAATGGATCATTCATCAAACTTTTCCCTCGCTTGGGAACCAG
upper sequence: GLYMA05G30850.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv13s0106g00570.t01 (Vitis vinifera), 3'ss of exon 3
--gtaagcctat---tacctggtattacttcc--tatggaactgatatgcta-tatggaatattaaactgatactt-----cctatgttatagCCTGCCCATGAGAAGATTGGAGTTGTTGATGCTCAGTGGATTGTGCACCAAGGTATTCCCTCACTAGGGAATCAG
||||| | ||| | || ||| ||| | | | || || ||| | || | | || |||| || || | |||||||||||||||| ||||||||||| ||| |||| |||| || || ||| | ||||||| || ||||| |||
gtactgacctatgtctgcctacttctaattctcttatattatttgtttgttagcatgcatgatcatattggaacttgctcgtctttgaaacagCCTGCCCATGAGAAAATTGGAGTTGTAGATTCTCAAGGGATCGTTCATCAAACTGTTCCCTCGCTTGGGAACCAG
upper sequence: GLYMA05G30850.1 (Glycine max), 3'ss of exon 10
lower sequence: PP1S70_58V6.1 (Physcomitrella patens), 3'ss of exon 12
-----------------------------------------------------------------------------------------------------------------------gtaagcctattacctggtattacttcctatggaactgatatgctatatggaatattaaactgatacttcctatg--ttatagCCTGCCCATGAGAAGATTGGAGTTGTTGATGCTCAGTGGATTGTGCACCAAGGTATTCCCTCACTAGGGAATCAG-------------------------
| | | ||| | | | | | || | | | | | ||| | || | || | | | ||| || ||||||| ||||| || ||||||||||| |||||||||||||| || | | | | | || ||| | |
gtaagtttatacgaagttgaatttcgtcagtcgtaggtgcagagcttacataactttctaattgcatcaacaaatggacacaagcttcggtggacttctttctactagttgaagtatcactctggttgttattt--tctcagtctctgtctgaattgttggatatctcatctactgaatggtttgtcttgatgatttgcagCCTGCACATGATAAAATTGGAGTTGTAGATGCTCAGTGGATCCGACATCGGGTTGTGCTATCTCTAAATAGCTCGGTTTGTGTTCCTCACAACCATTCAC
upper sequence: GLYMA05G30850.1 (Glycine max), 3'ss of exon 10
lower sequence: PP1S70_58V6.2 (Physcomitrella patens), 3'ss of exon 12
-----------------------------------------------------------------------------------------------------------------------gtaagcctattacctggtattacttcctatggaactgatatgctatatggaatattaaactgatacttcctatg--ttatagCCTGCCCATGAGAAGATTGGAGTTGTTGATGCTCAGTGGATTGTGCACCAAGGTATTCCCTCACTAGGGAATCAG
| | | ||| | | | | | || | | | | | ||| | || | || | | | ||| || ||||||| ||||| || ||||||||||| |||||||||||||| || | | | | | || ||| | |
gtaagtttatacgaagttgaatttcgtcagtcgtaggtgcagagcttacataactttctaattgcatcaacaaatggacacaagcttcggtggacttctttctactagttgaagtatcactctggttgttattt--tctcagtctctgtctgaattgttggatatctcatctactgaatggtttgtcttgatgatttgcagCCTGCACATGATAAAATTGGAGTTGTAGATGCTCAGTGGATCCGACATCGGGTTGTGCTATCTCTAAATAGCTCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctatggaactgatatgctatatggaatattaaactgatacttcctatgttatagCCTGCCCATGAGAAGATTGGAGTTGTTGATGCTCAGTGGATTGTGCACCAAGGTATTCCCTCACTAGGGAATCAG
aactgat putative branch site (score: 3)
tacttcct CT-rich tract
tatatggaatattaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagcctattacctggtattacttcctatggaactgatatgctatatggaatattaaactgatacttcctatgttatagCCTGCCCATGAGAAGATTGGAGTTGTTGATGCTCAGTGGATTGTGCACCAAGGTATTCCCTCACTAGGGAATCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA