Sequence
atgc intronic sequence ATGC exonic sequencegtaagcttggctttttatgagtaaacttgaaattgcatgttgtgcctgtttatgcaaacgttcatgtgtatttaaatgcagTGCATTAATATGCTTGAAGAATGCTCCTAACATTCCTGCAAAAAATTTTCATGCTTTAACTCGTTTAGATGAGAACAGAGCAAAATGTCAG
Basic information
species | Glycine max |
transcript | GLYMA20G33380.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G33380.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os08g44810.1 (Oryza sativa), 3'ss of exon 6
--gtaagcttggctttttatgagtaaacttgaaattgcatgttgtgcctgt-ttatgcaaacgttcatgtgtatttaaa----tgcagTGCATTAATATGCTTGAAGAATGCTCCTAACATTCCTGCAAAAAATTTTCATGCTTTAACTCGTTTAGATGAGAACAGAGCAAAATGTCAG
| || || | | ||| || ||| || || | | | | ||| || | | | |||||| || |||||||| || ||||| ||||||||||| ||||| || |||||||| |||||||| || || | || ||||| || ||||| || || |||
gtatggaatttttttatgttttctaagtgtgtcatt--attttatactattatcatgtttgaattaagttttttttaaacttttgtagTGCATTGATTTGCTTAAAGAATGCTCCCAACATACCAGCAAAAAACTTTCATGCATTGACGAGGTTGGATGAAAATAGAGCCAAGTGCCAG
upper sequence: GLYMA20G33380.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv13s0019g05250.t01 (Vitis vinifera), 3'ss of exon 6
-------------------------------------------------------gtaagcttggcttttt-atgagtaaacttga-----aattgcatgttgtgcctgtttatgcaaacgttcatgtgtatttaaatgcagTGCATTAATATGCTTGAAGAATGCTCCTAACATTCCTGCAAAAAATTTTCATGCTTTAACTCGTTTAGATGAGAACAGAGCAAAATGTCAG
|| | || ||||| || | |||| | | ||| | ||||| || | | | | || |||||||||||| ||||| |||| |||||||| ||||| |||||||| || ||||||||||| ||| | ||||||||||| |||||||||||||||
gtaagaagcattgatttttctttcgttcattcttcttttgtgtgagcatgtgtgtgtgtgtgtgttttttttattgatgttcttggtgtgcagtcctttgtcctccctgtc-atttatgattgtgtttcctttcctatgcagTGCATTGATATGTATGAAAAATGCTCCAAACATACCTGCAAAGAACTTTCATGCTTTGACTAGGTTAGATGAGAATAGAGCAAAATGTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgaaattgcatgttgtgcctgtttatgcaaacgttcatgtgtatttaaatgcagTGCATTAATATGCTTGAAGAATGCTCCTAACATTCCTGCAAAAAATTTTCATGCTTTAACTCGTTTAGATGAGAACAGAGCAAAATGTCAG
atgtgtatttaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagcttggctttttatgagtaaacttgaaattgcatgttgtgcctgtttatgcaaacgttcatgtgtatttaaatgcagTGCATTAATATGCTTGAAGAATGCTCCTAACATTCCTGCAAAAAATTTTCATGCTTTAACTCGTTTAGATGAGAACAGAGCAAAATGTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA