Sequence
atgc intronic sequence ATGC exonic sequencegtgtctgattcacaacttatcatggaaactttatgctaagGTCCACAGATTTGTTAGCACTTCCAGCTGTCGATTGTGATAAGGCATATGCCATGCAGCTATCTCTTGAAGAAACATTATTGACAACTCAGACAATGTAT
Basic information
species | Glycine max |
transcript | GLYMA10G28520.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G28520.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os04g04020.1 (Oryza sativa), 3'ss of exon 8
------------------------------------------------------------------------------gtgtctgattcacaacttatcatggaaactttatgctaagGTCCACAGATTTGTTAGCACTTCCAGCTGTCGATTGTGATAAGGCATATGCCATGCAGCTATCTCTTGAAGAAACATTATTGACAACTCAGACAATGTAT
| || | ||||||||||||||||| | || |||||||||||||| || || ||||||||||||||||| || | |||||| |||| ||| ||||| ||
gttctgagctgacaatattttaaagttttatttatcagcttaacattcaatgacttacaaactgatgtctgcttgcagGGGTGCGCTTCACAACTTATCATGGCCATTTCATGCTAAGGTCCACCGACTTATTAGCACTTCCAGCTGTTGACTCTGATAAAGCATTTGCAATGCAACT----------------------------------------
upper sequence: GLYMA10G28520.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM5G826171_T01 (Zea mays), 3'ss of exon 3
---------------------------------------------------------------------------------------gtgtctgattcacaacttatcatggaaactttatgctaagGTCCACAGATTTGTTAGCACTTCCAGCTGTCGATTGTGATAAGGCATATGCCATGCAGCTATCTCTTGAAGAAACATTATTGACAACTCAGACAATGTAT
| || | |||||||| |||||||| | || |||||| |||||||||| ||||||| ||||||||||| || | |||||| || | ||| ||||| ||
gttcaattcacagctgcatttatcttcattttctatttgtatttggtagtttatgaattgatctaactctcatagcatctgtttcagGAGTACGGTTCACAACCTATCATGGTCATTTCATGCTACGGTCCACAGACCTGTTAGCCCTTCCAGCTGTTGACTCTGATAAAGCTTTTGCAATGCAACT----------------------------------------
upper sequence: GLYMA10G28520.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv19s0014g01900.t01 (Vitis vinifera), 3'ss of exon 8
-------------------------------------------------------------------------------------------------------------------------------------------------------gtgtctgattcacaacttatcatggaaactttatgctaagGTCCACAGATTTGTTAGCACTTCCAGCTGTCGATTGTGATAAGGCATATGCCATGCAGCTATCTCTTGAAGAAACATTATTGACAACTCAGACAATGTAT
|||| | || ||| |||||||||| ||||| |||||||| ||||| ||||||||||| ||||||||||| || |||||||| || | ||| |||||| |
gtccaactgttcctgaaactcttcaaccatcacaattcttgagattattttttcccttttttttttcttgtaaattttaattttacttcttcaagatcttgttaattgctatttgggtactgaaagttgaatctttttcctgtaattttagGTGTGCGGTTTACATCTTATCATGGGAACTTCATGCTAAGATCCACTGATTTGTTAGCCCTTCCAGCTGTAGACTGTGATAAAGCCTTTGCAATGCAGTT---------------------------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgtctgattcacaacttatcatggaaactttatgctaagGTCCACAGATTTGTTAGCACTTCCAGCTGTCGATTGTGATAAGGCATATGCCATGCAGCTATCTCTTGAAGAAACATTATTGACAACTCAGACAATGTAT
gtctgat putative branch site (score: 4)
aaactttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtctgattcacaacttatcatggaaactttatgctaagGTCCACAGATTTGTTAGCACTTCCAGCTGTCGATTGTGATAAGGCATATGCCATGCAGCTATCTCTTGAAGAAACATTATTGACAACTCAGACAATGTAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA