Sequence
atgc intronic sequence ATGC exonic sequence...taaattatataattaatatcatgtgcacccattgaaaatttgaaactgaaatgggaagacttgacatataatttatatgatttaaatgatatgaatccagGCATCACCAACATGGTAGATGGCAAGCTAGGATTGGAAGAGTAGCAGTCAACAAAGATCTCTACTTGGGAACTTTCA
Basic information
species | Glycine max |
transcript | GLYMA10G31440.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G31440.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G17430.1 (Arabidopsis thaliana), 3'ss of exon 7
---------------taaattatataattaatatcatgtgcacccattgaaaatttgaaactgaaatgggaa--gacttgacatataatttatatgatttaaatgatat------------gaatcca---gGCATCACCAACATGGTAGATGGCAAGCTAGGATTGGAAGAGTAGCAGTCAACAAAGATCTCTACTTGGGAACTTTCA
| ||| || |||| ||| ||| ||||| | || || | | | ||| ||| || | || ||| | |||| | |||| |||||||||||||||| || |||||||||||||| |||||||| || | |||||||| ||||||||||||||||||
gtacgtataatccatctagatatggaacgaatacagtgtttcattattttt--tttgatgtatacataataattgtcatacaatactattaatctaatctaattaatatttcctttaaaatggttccaaaagGCATCACCAACATGGAAGGTGGCAAGCTAGGATCGGAAGAGTCGCCGGTAACAAAGACCTCTACTTGGGAACTTTCG
upper sequence: GLYMA10G31440.1 (Glycine max), 3'ss of exon 8
lower sequence: EFJ17692 (Selaginella moellendorffii), 3'ss of exon 4
taaattatataattaatatcatgtgcacccattgaaaatttgaaactgaaatgggaagacttgacatataatttatatgatttaaatgatatgaatccagGCATCACCAACATGGTAGATGGCAAGCTAGGATTGGAAGAGTAGCAGTCAACAAAGATCTCTACTTGGGAACTTTCA
| |||| | | | ||| || | | | || | | | ||||||||||||| || || |||||||||||| |||| ||| |||| || | || |||||||| ||| | ||||||||||
-----------------------------------------------gtaatgctcatgatcaattcatatattttttcacttcggtctttttt-cccagGCATCACCAGCAGGGAAGATGGCAAGCTCGGATCGGACGAGTTGCGGGGAATAAAGATCTGTACCTCGGAACTTTCA
upper sequence: GLYMA10G31440.1 (Glycine max), 3'ss of exon 8
lower sequence: EFJ16224 (Selaginella moellendorffii), 3'ss of exon 4
taaattatataattaatatcatgtgcacccattgaaaatttgaaactgaaatgggaagacttgacatataatttatatgatttaaatgatatgaatccagGCATCACCAACATGGTAGATGGCAAGCTAGGATTGGAAGAGTAGCAGTCAACAAAGATCTCTACTTGGGAACTTTCA
| |||| | | | ||| || | | | || | | | ||||||||||||| || || |||||||||||| |||| ||| |||| || | || |||||||| ||| | ||||||||||
-----------------------------------------------gtaatgctcatgatcaattcatatattttttcacttcggtctttttt-cccagGCATCACCAGCAAGGAAGATGGCAAGCTCGGATCGGACGAGTTGCCGGGAATAAAGATCTGTACCTCGGAACTTTCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgaaatgggaagacttgacatataatttatatgatttaaatgatatgaatccagGCATCACCAACATGGTAGATGGCAAGCTAGGATTGGAAGAGTAGCAGTCAACAAAGATCTCTACTTGGGAACTTTCA
acttgac putative branch site (score: 4)
ttgacatataatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taaattatataattaatatcatgtgcacccattgaaaatttgaaactgaaatgggaagacttgacatataatttatatgatttaaatgatatgaatccagGCATCACCAACATGGTAGATGGCAAGCTAGGATTGGAAGAGTAGCAGTCAACAAAGATCTCTACTTGGGAACTTTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - tcatgtg
- - - - - - - - - - - - -cacccat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttgaca