Sequence
atgc intronic sequence ATGC exonic sequence...gcatttgcttaccttattgtagttacaaaaaatccttaaacattatattttaaacatgaaaataataatgagttactatcacgtactctttgttttccagGGCTTAGAAGATGTGGAAAGAGTTGCAGACTTAGATGGTCGAATTATCTCCGACCTGATATAAAACGAGGAAAGTTCAGCTTGCAGGAAGAGCAAACCAT
Basic information
species | Glycine max |
transcript | GLYMA02G12260.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G12260.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv01s0026g02770.t01 (Vitis vinifera), 3'ss of exon 1
---------------------------gcatttgcttaccttattgtagttacaaaaaatccttaaacattatattttaaacatgaaaataataat--gagttactatcacgtactct--ttgttttccagGGCTTAGAAGATGTGGAAAGAGTTGCAGACTTAGATGGTCGAATTATCTCCGACCTGATATAAAACGAGGAAAGTTCAGCTTGCAGGAAGAGCAAACCAT
||| | || || || | || | || | |||| | |||| || || || | || | | | ||| |||| | |||||||| ||||| |||||| | |||||| | ||||||||| | |||||||| ||| |||| ||||| |||||||||||||| || |||||
gtaaaacaaaaacaccatgcatcaccaccatctttttgtttttttttt-ttttgttttcctttcttttataactttttgagatgctgtttaattatttgaattgttttcttttgttggagcttgtttatagGGTTGCAGAGATGTGGGAAGAGCTGCAGATTGAGATGGACCAATTATCTCAGGCCTGATATCAAAAGAGGCAAGTTTAGCTTGCAGGAAGAACAGACCAT
upper sequence: GLYMA02G12260.1 (Glycine max), 3'ss of exon 3
lower sequence: EFJ36085 (Selaginella moellendorffii), 3'ss of exon 1
gcatttgcttaccttattgtagttacaaaaaatccttaaacattatattttaaacatgaaaataataatgagttactatcacgtactctttgttttccagGGCTTAGAAGATGTGGAAAGAGTTGCAGACTTAGATGGTCGAATTATCTCCGACCTGATATAAAACGAGGAAAGTTCAGCTTGCAGGAAGAGCAAACCAT
| | | | | | | || | || | | ||| | ||| |||| | || || ||||||||||| || ||||| ||||||||||||| || |||||||||||||| | ||| || ||||||
--------------------------------------------gtgaatcgatttctcacgtcttcgtctcatagtttctcttggatcttgcgagC-AGGACTTAATCGCTGCGGCAAGAGTTGCAGGCTGCGATGGACGAATTATCTCCGGCCGGATATAAAACGAGGCGGGATCACAGCCCAAGAAGAGGTTCT---
upper sequence: GLYMA02G12260.1 (Glycine max), 3'ss of exon 3
lower sequence: EFJ36083 (Selaginella moellendorffii), 3'ss of exon 1
gcatttgcttaccttattgtagttacaaaaaatccttaaacattatattttaaacatgaaaataataatgagttactatcacgtactctttgttttccagGGCTTAGAAGATGTGGAAAGAGTTGCAGACTTAGATGGTCGAATTATCTCCGACCTGATATAAAACGAGGAAAGTTCAGCTTGCAGGAAGAGCAAACCAT
| | |||| |||| | | |||| || | | || | |||| |||| | || || ||||||||||| || ||||| ||||||||||||| || |||||||||||||| | ||| || ||||||
--------------------------------------gtgaatcgatttctcacatcttcgtctcat--agtttctcttggatcctgcgag-
upper sequence: GLYMA02G12260.1 (Glycine max), 3'ss of exon 3
lower sequence: EFJ18723 (Selaginella moellendorffii), 3'ss of exon 1
gcatttgcttaccttattgtagttacaaaaaatccttaaacattatattttaaacatgaaaataataatgagttactatcacgtactctttgttttccagGGCTTAGAAGATGTGGAAAGAGTTGCAGACTTAGATGGTCGAATTATCTCCGACCTGATATAAAACGAGGAAAGTTCAGCTTGCAGGAAGAGCAAACCAT
| | | | || | | || | || | | ||| | ||| |||| | || || ||||||||||| || ||||| |||| |||||||| || |||||||||||||| | ||| || ||||||
--------------------------------------------gtgaatcgatttctcacatcttcgtctcatagtttctcttggatcttgcgagC-AGGACTTAATCGCTGCGGCAAGAGTTGCAGGCTGCGATGGACGAACTATCTCCGGCCGGATATAAAACGAGGCGGGATCACAGCCCAAGAAGAGGTTCT--- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattttaaacatgaaaataataatgagttactatcacgtactctttgttttccagGGCTTAGAAGATGTGGAAAGAGTTGCAGACTTAGATGGTCGAATTATCTCCGACCTGATATAAAACGAGGAAAGTTCAGCTTGCAGGAAGAGCAAACCAT
tactctttgttttcc CT-rich tract
taaacatgaaaataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcatttgcttaccttattgtagttacaaaaaatccttaaacattatattttaaacatgaaaataataatgagttactatcacgtactctttgttttccagGGCTTAGAAGATGTGGAAAGAGTTGCAGACTTAGATGGTCGAATTATCTCCGACCTGATATAAAACGAGGAAAGTTCAGCTTGCAGGAAGAGCAAACCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - gcttacc
- - - - - - - - - - - - - aaaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaataa