Sequence
atgc intronic sequence ATGC exonic sequence...tatgcaaaatttgggccatttgtaattaattactgcaaattttatatatggtatttaaatttctgcggcaatatgatgatgcaccttccttttgttgcagAATTTCGTGGGGTTGTCTGTATCTGATGGTTACATTGCTACTGGTTCAGAGACAAACGAGGCATTTCATTTTTCCTCTCTC
Basic information
species | Glycine max |
transcript | GLYMA12G25240.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G25240.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os01g52640.3 (Oryza sativa), 3'ss of exon 4
----tatgcaaaatttgggccatttgtaattaattactgcaaattttatatatggtatttaaatttctgcggcaatatgatgatgcaccttccttttgttgcagAATTTCGTGGGGTTGTCTGTATCTGATGGTTACATTGCTACTGGTTCAGAGACAAACGAGGCATTTCATTTTTCCTCTCTC
| | || ||| | ||| || || | | | || || ||| ||| ||| | | || | | | |||||||| || || | ||| ||||||||||||||||||||||||| ||||||||||| |||
ttctagtatagccctttcttcatattcctttagttgctttcaggcaaa---agaatactttgttttatgct-taatttagttatttcttgaacctgttgaacagAATTTTGTTGGACTTTCTATATCTGATGGTTACATTGCTACTGGCTCAGAGACAAATGAG---------------------
upper sequence: GLYMA12G25240.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G061602_T01 (Zea mays), 3'ss of exon 5
tatgcaaaatttgggccatttgt--aattaattactgcaaattttatatatggtatttaaatttctgc--ggcaatatgatgatgcaccttcc---ttttgttgcagAATTTCGTGGGGTTGTCTGTATCTGATGGTTACATTGCTACTGGTTCAGAGACAAACGAGGCATTTCATTTTTCCTCTCTC
||||| || ||| ||||| | | | || || | | | || | | | |||| || || | | | || || | ||||| ||||| || | || ||||||||||||||||||||||||| || || ||||| |||
--tgcaacat---agccttttgtatagtgagttgctttctgtgctgaaa--ggcactgatattttcattgggtgatcgatttacttattttttaaaccttttgccagAACTTCGTTGGTCTTTCCATATCTGATGGTTACATTGCTACTGGCTCTGAAACAAATGAG---------------------
upper sequence: GLYMA12G25240.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv19s0014g02660.t01 (Vitis vinifera), 3'ss of exon 6
-tatgcaaaatttgggccatttgtaattaattactgcaaattttatatatggtatttaaatttctgcggcaatatgatgatgcaccttccttttgttgcagAATTTCGTGGGGTTGTCTGTATCTGATGGTTACATTGCTACTGGTTCAGAGACAAACGAGGCATTTCATTTTTCCTCTCTC
| ||| || | ||| | || |||| | || || | ||||| || | | | | || ||||| | ||| ||||||||||| || || || ||||||||||| ||||||||||||||||| || ||||| |||| |||
tcagttcaaacgtgtgat-tttttcatgtattaattcattgttgaaatatgcctttggtttatgtatgttttgttgctgatgtatgttctccttgttgcagAACTTTGTAGGTTTGTCTGTATCCGATGGTTACATTGCTACGGGCTCAGAAGCAAATGAG---------------------
upper sequence: GLYMA12G25240.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ14473 (Selaginella moellendorffii), 3'ss of exon 7
tatgcaaaatttgggccatttgtaattaattactgcaaattttatatatggtatttaaatttctgcggcaatatgatgatgcaccttccttttgttgcagAATTTCGTGGGGTTGTCTGTATCTGATGGTTACATTGCTACTGGTTCAGAGACAAACGAGGCATTTCATTTTTCCTCTCTC
|| | | | | | ||| | | ||| | ||| ||| | | | |||||||||||| || ||||||||||| ||||| ||||| || ||| |||||||||||||
-------------------------------gtagcgactctctttc--gatatcttcgtgtctcttacgtcgtga------accgacttgcttgagcagAATTTCGTTGGATTGTCTGTATCCGATGGCTACATCGCGTGTGGCTCAGAGACAAACGCC--------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatggtatttaaatttctgcggcaatatgatgatgcaccttccttttgttgcagAATTTCGTGGGGTTGTCTGTATCTGATGGTTACATTGCTACTGGTTCAGAGACAAACGAGGCATTTCATTTTTCCTCTCTC
caccttccttttgtt CT-rich tract
tatttaaatttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatgcaaaatttgggccatttgtaattaattactgcaaattttatatatggtatttaaatttctgcggcaatatgatgatgcaccttccttttgttgcagAATTTCGTGGGGTTGTCTGTATCTGATGGTTACATTGCTACTGGTTCAGAGACAAACGAGGCATTTCATTTTTCCTCTCTC
tatgcaa
- - - - - - - -ccatttg
- - - - - - - - - - - - - - - tactgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tttctgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gatgatg