Sequence
atgc intronic sequence ATGC exonic sequencegtacttaattctattattattttaaaatttgcttttattgcttacatatttaaagtctgactgtgactgccctttttttgggttattattctgtagCTTATATGTCAGGTTGGACATAAGAGGGGGCGATTGACCATAGAAGAAGATGATGATGAACAACCAAATAAGAAGGTTCGAATGGGAATGCCTGCTACAC
Basic information
species | Glycine max |
transcript | GLYMA04G09080.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G09080.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os05g11140.2 (Oryza sativa), 3'ss of exon 10
----gtacttaattctattattattttaaaatttgctt--ttattgcttacatatttaaagtctgactg--tgactgccctttttttgggttattattctgtagCTTATATGTCAGGTTGGACATAAGAGGGGGCGATTGACCATAGAAGAAGATGATGATGAACAACCAAATAAGAAGGTTCGAATGGGAATGCCTGCTACAC
|| | || | | | ||||| | | || | | | | | | || |||| ||| ||| | | ||||||||| ||||||||| || || || || || | || || || |||||||||||||| || ||||| |||||| || ||||||| |||||||| || |
ttttgtggcaagagctttggggagaacattatttgtataataatatttcgtttgtgttgatgttagctaatagactaagtgtttgttgaacttctgcc----agCTTATATATCAGGTTGGTCAAAAAAGAGGTCGCCTAACGATGGACGAAGATGATGATGAGCAGCCAAAAAAGAAGATTAGAATGGGCATGCCTGCAACTC
upper sequence: GLYMA04G09080.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G116151_T03 (Zea mays), 3'ss of exon 10
--------------------------------------------------------------------gtacttaattctattattattttaaaatttgcttttat-tgcttacatatttaaagtctg--actgtgactgccctttttttgggttattattctgtagCTTATATGTCAGGTTGGACATAAGAGGGGGCGATTGACCATAGAAGAAGATGATGATGAACAACCAAATAAGAAGGTTCGAATGGGAATGCCTGCTACAC
||||| | | | || ||||| | | | || || | || | | ||| | | || | ||| | ||||| ||| |||||| || || ||||| || || | || || || |||||||||||||| || || || |||||| |||| |||||||||||||| || |
gtattgttctatccaaccttgttgctccttgttcttgttaactaaagcttgcttccagccattgtttggtactaaggcttctgggccattggttatttgtaccagtacacatctgcatacaatgattggtatagatactaatatatgcttttatgattttctaccagCTTGTATTTCAGGTAGGCCAGAAGAGAGGTCGCCTTACGATGGAGGAAGATGATGATGAGCAGCCCAAAAAGAAGATTCGGATGGGAATGCCTGCGACCC
upper sequence: GLYMA04G09080.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv09s0002g03680.t01 (Vitis vinifera), 3'ss of exon 10
----------------------------gtacttaattctattattattttaaaatttgcttttattgcttacatatttaaagt-ctgactgtgactgccctttttttgggttattattctgtagCTTATATGTCAGGTTGGACATAAGAGGGGGCGATTGACCATAGAAGAAGATGATGATGAACAACCAAATAAGAAGGTTCGAATGGGAATGCCTGCTACAC
|| | |||||| | | || ||| || || || | | |||| || || | ||| | || || || || ||||||| | ||||||||| |||||||| || || ||||| ||||||||||| || ||||| || || || |||||||| || ||||| |||||||| ||||
gtaactactatgctcttgcttctaggccgtgtgatggttcattattgagctggagttcttatttgtttattgtttaacagactttctgaatg-gagatctaatttatactctttttcttgtgaagCTTATCTATCAGGTTGGTCATAAGAGAGGCCGGTTGACTATAGAAGAAGAGGAAGATGAGCAGCCGAAGAAGAAGGTCCGTATGGGGATGCCTGCAACAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttacatatttaaagtctgactgtgactgccctttttttgggttattattctgtagCTTATATGTCAGGTTGGACATAAGAGGGGGCGATTGACCATAGAAGAAGATGATGATGAACAACCAAATAAGAAGGTTCGAATGGGAATGCCTGCTACAC
ttattct CT-rich tract
tatttaaagt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacttaattctattattattttaaaatttgcttttattgcttacatatttaaagtctgactgtgactgccctttttttgggttattattctgtagCTTATATGTCAGGTTGGACATAAGAGGGGGCGATTGACCATAGAAGAAGATGATGATGAACAACCAAATAAGAAGGTTCGAATGGGAATGCCTGCTACAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG