Sequence
atgc intronic sequence ATGC exonic sequence...atgatgctttttgagtacccaattgatgaatcgtgagtaaagtcttcatcttttcctcgcacgctgttgctgattatttgattggatgttttttttatagATATCTGTGTCCTGAGCCGTATCCGGAGGCCAACATGGAGTTCCTCAAGTCAAATGGGATCAAGCTTTTTCAGTTTGGGATTGAGGGCCATAAG
Basic information
species | Glycine max |
transcript | GLYMA14G05400.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G05400.1 (Glycine max), 3'ss of exon 1
lower sequence: AT2G32960.1 (Arabidopsis thaliana), 3'ss of exon 1
---------------------------------atgatgctttttgagtacccaattgatgaatc-gtgagtaaagtcttcatcttttcctcgcacgctgttgctgattatttgattggatgttttttttatagATATCTGTGTCCTGAGCCGTATCCGGAGGCCAACATGGAGTTCCTCAAGTCAAATGGGATCAAGCTTTTTCAGTTTGGGATTGAGGGCCATAAG------
|| || || | ||| | | | ||| || | || ||| | || | | ||| | || |||| | | | | | |||| | ||||||| ||||| ||||| ||| ||||||| |||||||||| || ||||| || | |||||||||||||| ||||| ||| ||||
gtataaagctactatgatcaattgactcttatattggaaacgttggacttgttgatttaggtttttgtgtgtgtttttttttccttctgacatcaagtttttgtggtttgtttgtgtatgggaaatgtgtgaagATCTTTGTGTCCAGAGCCATATCCTGAGAACAACATGCAGTTCCTCAAATCCAATGGAATTAGTCTTTTTCAGTTTGGCATTGAAGGCTCTAAGTCCAAG
upper sequence: GLYMA14G05400.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv12s0059g01400.t01 (Vitis vinifera), 3'ss of exon 1
------------atgatgctttttgagtacccaattgatg--aatcgtgagtaaagtcttcatcttttcctcgcacgctgttgctgattatttgattggatgttttttt-tatagATATCTGTGTCCTGAGCCGTATCCGGAGGCCAACATGGAGTTCCTCAAGTCAAATGGGATCAAGCTTTTTCAGTTTGGGATTGAGGGCCATAAG
||| | |||| | | | | ||| ||| || | | ||| | | || | | ||| |||| || |||| | |||||| || || || ||| ||||||||||||| || | |||||||||||||| |||||||| ||||||||||||||||| ||||| || |||||
gtgagtctgaatttgagccctttttgcttcgttttaggctctgatcttgaactgagaaatgttaatttagggttttggttttctttttcttttttttggttgaattttcatttagATACCTTTGCCCGGAGACGTATCCGGAGGCGAATAATGAGTTCCTCAAGTCGAATGGGATTAAGCTTTTTCAGTTTGGAATTGAAGGATATAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcatcttttcctcgcacgctgttgctgattatttgattggatgttttttttatagATATCTGTGTCCTGAGCCGTATCCGGAGGCCAACATGGAGTTCCTCAAGTCAAATGGGATCAAGCTTTTTCAGTTTGGGATTGAGGGCCATAAG
tgtttttttt CT-rich tract
attatttgattggatg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgatgctttttgagtacccaattgatgaatcgtgagtaaagtcttcatcttttcctcgcacgctgttgctgattatttgattggatgttttttttatagATATCTGTGTCCTGAGCCGTATCCGGAGGCCAACATGGAGTTCCTCAAGTCAAATGGGATCAAGCTTTTTCAGTTTGGGATTGAGGGCCATAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT