Sequence
atgc intronic sequence ATGC exonic sequence...tttccttcttctttaaccattcaactcatcttatatatcctttttgtgtaatgtttttgttattcttattcttattcaacctttttctattattgtgtagGCTCTTTCAAATGGAAGGTACAAGAGTTGCTTGCATAGGGCAGTGGTGAACAGCAAGACCACAAGAAAATCTCTTGCTTTCTTTTTGTGTCCAAAAGGTG
Basic information
species | Glycine max |
transcript | GLYMA09G27490.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G27490.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv16s0022g02310.t01 (Vitis vinifera), 3'ss of exon 2
-------------------------------------------tttccttc---------ttctttaacca-----ttcaactcatcttatatatcctttttgtgtaatgtttttgttattcttattcttattcaaccttt-----ttctattattgtgtagGCTCTTTCAAATGGAAGGTACAAGAGTTGCTTGCATAGGGCAGTGGTGAACAGCAAGACCACAAGAAAATCTCTTGCTTTCTTTTTGTGTCCAAAAGGTG
||| |||| || || || | |||| | | | || | | |||||| | | || |||| | | || || || | | || | || | |||||||||||||||||||||||||||| ||||| |||||||||||||| |||||| | || |||||||||||||||||||||||||||||||| | |
gtaacctgaatcacgttttcacagacccacttttagttactgttttgcttcaaaaaaaggtttttcaaaaaaggttttcattttttttcattttttctttttcttttttggtttt-tagtggttgatcataagtgctttgtggggtttttgccatctttcagGCTCTTTCAAATGGAAGGTACAAGAGCTGCTTACATAGGGCAGTGGTAAACAGCCAAACTCCAAGAAAATCTCTTGCTTTCTTTTTGTGTCCAGAGAAAGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|22932821|gb|BU549960.1|BU549960EST: TTAGCCCAAATTTCAATGCTTTTGTTGTCAACATAGGTGACACCTTCATG GCTCTTTCAAATGGAAGGTACAAGAGTTGCTTGCATAGGGCAGTGGTGAAC
genomic: TTAGCCCAAATTTCAATGCTTTTGTTGTCAACATAGGTGACACCTTCATGgtatgtttga ... tattgtgtagGCTCTTTCAAATGGAAGGTACAAGAGTTGCTTGCATAGGGCAGTGGTGAAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgtaatgtttttgttattcttattcttattcaacctttttctattattgtgtagGCTCTTTCAAATGGAAGGTACAAGAGTTGCTTGCATAGGGCAGTGGTGAACAGCAAGACCACAAGAAAATCTCTTGCTTTCTTTTTGTGTCCAAAAGGTG
cctttttctattatt CT-rich tract
tttttgttattcttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttccttcttctttaaccattcaactcatcttatatatcctttttgtgtaatgtttttgttattcttattcttattcaacctttttctattattgtgtagGCTCTTTCAAATGGAAGGTACAAGAGTTGCTTGCATAGGGCAGTGGTGAACAGCAAGACCACAAGAAAATCTCTTGCTTTCTTTTTGTGTCCAAAAGGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- -ccttctt
- - - - - - - - ccattca
- - - - - - - - - - - - - - - - - - - - -ttttgtg