Sequence
atgc intronic sequence ATGC exonic sequence...aattctacccatttttcttctaactctgataggagagtttgaactttggactcttatgcattttcttttaaattctttgaaccttggactcttgtggcagTACTCCTATTTTTACTGGTGACGGGGAAGGTGGAAGTGGTTTTGCTGCAGGCAGTGTATCTGGATTTGAGTTTGGTGTTGATCCAAACTTGGACCCTGAA
Basic information
species | Glycine max |
transcript | GLYMA16G23590.2 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G23590.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G147671_T02 (Zea mays), 3'ss of exon 5
aattctacccatttttcttctaactctgataggagagtttgaactttggactcttatgcattttcttttaaattctttgaaccttggactcttgtggcagTACTCCTATTTTTACTGGTGACGGGGAAGGTGGAAGTGGTTTTGCTGCAGGCAGTGTATCTGGATTTGAGTTTGGTGTTGATCCAAACTTGGACCCTGAA-----
||| | | | || | | | | | | | | || || | || |||| ||| |||||||| ||||||||||| ||||||||||||||||||||||| | | | ||| | | ||| | ||| | ||| | |
-------------------gtaattgggtgccatgttcctgcgttctaagttttcttatgctg-catatatgttaaccttatttttctttctttatccagCACTCCTATATTTACTGGTGA---AGAAGGTGGAAGTGGTTTTGCTGCTTCCGCAGCAGCTGCCGTAGCTACTGGAGC--ATCTGGATTTGAATTTGGTGTGGAC
upper sequence: GLYMA16G23590.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S14_318V6.2 (Physcomitrella patens), 3'ss of exon 5
aattctacccatttttcttctaactctgataggagagtttgaact-ttggactcttatgcattttcttttaaat------tctttgaaccttggactcttgtggcagTACTCCTATTTTTACTGGTGACGGGGAAGGTGGAAGTGGTTTTGCTGCAGGCAGTGT---ATCTGGATTTGAGTTTGGTGTTGATC-CAAACTTGGACCCTGAA
|| || ||| || |||||| | || || |||| | || |||| | | | ||| | | ||| || ||||| || |||| ||||||||||| || |||||||||||||| |||||||||| || ||||| | | || |||| | | ||| |
-------atgatcttactttgaattctgatggtttgtactggcctcttggtaaatgatatgttttggtatcaccagtctctctctaatttatggttactccacgcagTTCTTCTATCTTTACTGGTGATGGAGAAGGTGGAAGTGGATTTGCTGCAGCTGCTGCCGCATCTGCTGCCGCGGCTGCCGTTGGTGGTGGAGGTGGTGCA---- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttggactcttatgcattttcttttaaattctttgaaccttggactcttgtggcagTACTCCTATTTTTACTGGTGACGGGGAAGGTGGAAGTGGTTTTGCTGCAGGCAGTGTATCTGGATTTGAGTTTGGTGTTGATCCAAACTTGGACCCTGAA
ctcttgt CT-rich tract
attttcttttaaattc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aattctacccatttttcttctaactctgataggagagtttgaactttggactcttatgcattttcttttaaattctttgaaccttggactcttgtggcagTACTCCTATTTTTACTGGTGACGGGGAAGGTGGAAGTGGTTTTGCTGCAGGCAGTGTATCTGGATTTGAGTTTGGTGTTGATCCAAACTTGGACCCTGAA
- - ctaccca
- - - - - - - - - - - - -ctgatag
- - - - - - - - - - - - - - - - - gagtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccttgga