Sequence
atgc intronic sequence ATGC exonic sequencegtgagctatttatcatttaatttactttgcagactagttgcaattttccaacacattgcataacttgtataagcatacttcagTGAAATGATAGAAGCTGTTGGTCATGAATACATGGAAGAGTTCTTTGGCTGTTGTGAATCAGTATTGGCGGATAATGGACTTCTTGTTCTCCAG
Basic information
species | Glycine max |
transcript | GLYMA20G34340.1 |
intron # | 21 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G34340.1 (Glycine max), 3'ss of exon 21
lower sequence: LOC_Os12g16650.1 (Oryza sativa), 3'ss of exon 19
----------------------------------------------------------------------------gtgagctatttatcatttaatttactttgcagactagt---tgcaatttt-cca---acacattgcat--aacttgtataagcatacttcagTGAAATGATAGAAGCTGTTGGTCATGAATACATGGAAGAGTTCTTTGGCTGTTGTGAATCAGTATTGGCGGATAATGGACTTCTTGTTCTCCAG
|| | ||||||| || || || || || || ||| ||| || ||||| | | | | | | || | ||||||| ||||| |||| |||||||||||||||||||| || ||||||||||| ||||| || | ||||| || ||||| | |||| ||||
gtaagtactagtactaccatgtgagtttcaattgaaatagagtaatcaagttggttttctcccatcacctgaaaaataaagttggttatcatc-gatcaacactgggtacatgttcatgtgattccgccagttactaattgcttccagcctattgcataattcatcagTGAGATGATTGAAGAAGTTGGTCATGAATACATGGATGAATTCTTTGGCTGCTGTGAGTCCCTTTTGGCTGAAAATGGCATATTTGTCACCCAG
upper sequence: GLYMA20G34340.1 (Glycine max), 3'ss of exon 21
lower sequence: Vv05s0049g01620.t01 (Vitis vinifera), 3'ss of exon 16
gtgagctatttatcatttaatttactttgcagactagttgcaattttccaacacattgcataacttgta----taagcatacttcagTGAAATGATAGAAGCTGTTGGTCATGAATACATGGAAGAGTTCTTTGGCTGTTGTGAATCAGTATTGGCGGATAATGGACTTCTTGTTCTCCAG
||||| | || | | ||||| | | | | | || | |||| || || | | | | | ||||| ||| ||||| |||| || ||||| || ||||| ||||| ||||| |||||||| ||||||||||| || |||| |||||||| || |||
gtgagttccttcac-tgcaatttgtatcaggatcagatgatagtatttgaggccattacaatgttttaactgatgaatgttttacagTGGGATGCTAGAATCTGTGGGGCATGAGTATATGGAGGAGTTTTTTGGTTGTTGTGAGTCAGTATTGGCAGAAGATGGGCTTCTTGTCCTGCAG
upper sequence: GLYMA20G34340.1 (Glycine max), 3'ss of exon 21
lower sequence: Vv05s0049g01650.t01 (Vitis vinifera), 3'ss of exon 20
gtgagctatttatcatttaatttactttgcagactagttgcaattttccaacaca-ttgca-taacttgt---ataagcatacttcagTGAAATGATAGAAGCTGTTGGTCATGAATACATGGAAGAGTTCTTTGGCTGTTGTGAATCAGTATTGGCGGATAATGGACTTCTTGTTCTCCAG
||||| | || || | | || | | || || || | | | ||| || || || | | || || | | | |||||| ||| |||||||||| || ||||| || ||||| ||||| ||||| |||||||| ||||||||||| || ||||||||||||| || |||
gtgagttcctt--cactgcaatttgtataaggatcagatgatagtattcaaggcaattacaatgatttaactaatgaatgttttacagTGAGATGCTAGAAGCTGTGGGGCATGAGTATATGGAGGAGTTTTTTGGTTGTTGTGAGTCAGTATTGGCAGAAGATGGACTTCTTGTCCTGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcagactagttgcaattttccaacacattgcataacttgtataagcatacttcagTGAAATGATAGAAGCTGTTGGTCATGAATACATGGAAGAGTTCTTTGGCTGTTGTGAATCAGTATTGGCGGATAATGGACTTCTTGTTCTCCAG
gcataac putative branch site (score: 3)
ttgtataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagctatttatcatttaatttactttgcagactagttgcaattttccaacacattgcataacttgtataagcatacttcagTGAAATGATAGAAGCTGTTGGTCATGAATACATGGAAGAGTTCTTTGGCTGTTGTGAATCAGTATTGGCGGATAATGGACTTCTTGTTCTCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT