Sequence
atgc intronic sequence ATGC exonic sequence...gcatgtatataaatatgtgtgtgtgtgtgtgtgtgtatgcattaggtggtagtatgagaacatatgtgattagtttcttatgttctattatgtatgacagAATCTAAGGTCGAACCTGACGATGTGGAAGCTTGGAACCCTACCCCCTGCTTTGATTGCATTCAAAGGTCATGTTCACCCAATTGACCCCTCTTGGCACA
Basic information
species | Glycine max |
transcript | GLYMA19G03460.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G03460.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G01040.2 (Arabidopsis thaliana), 3'ss of exon 5
gcatgtatataaatatgtgtgtgtgtgtgtgtgtgtatgcattaggtggtagtatgagaacatatgtgattagtttcttatgttctattatgtatgacagAATCTAAGGTCGAACCTGACGATGTGGAAGCTTGGAACCCTACCCCCTGCTTTGATTGCATTCAAAGGTCATGTTCACCCAATTGACCCCTCTTGGCACA
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----gtaaagtatcagagaagcctgta-atgttt-tgagttttagattcgaaattggcaaattat-tgatcatgcttactggttttgctttgatgtgcagAATCTGAAGTCGAATCTAACAATGTGGAAACTTGGAACATTGCCTCCTGCTCTAATAGCATTTAAAGGTCATGTTCAGCCAATAGATTCCTCTTGGCATA
upper sequence: GLYMA19G03460.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv14s0108g01520.t01 (Vitis vinifera), 3'ss of exon 5
---gcatgtatataaatatgtgtgtgtgtgtgtgtg-tgtatgcattaggtggtagtatgagaacatatgtgattagtttcttatgttctattatgtatgacagAATCTAAGGTCGAACCTGACGATGTGGAAGCTTGGAACCCTACCCCCTGCTTTGATTGCATTCAAAGGTCATGTTCACCCAATTGACCCCTCTTGGCACA
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tgagcttttaattgattatatat-tttgtttaaatgataaaatttctgggatgtgcttagtcaccatttcttacttggattgtggggcctttc---tgttgtagAATCTGAAGTCAAACCTGACTATGTGGAAGCTTGGAACCCTACCTCCTGCTTTGATAGCATTTAAAGGTCATATTCACCCAATCGACCCATCCTGGCACAMapped 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|22525784|gb|BU084595.1|BU084595EST: CGTGGAGAACAACAAACATAAGAGAGACATATCATACCTGGCTGAAAGAG AATCTAAGGTCGAACCTGACGATGTGGAAGCTTGGAACCCTACCCCCTGCT
genomic: CGTGGAGAACAACAAACATAAGAGAGACATATCATACCTGGCTGAAAGAGgtaaagtcat ... tgtatgacagAATCTAAGGTCGAACCTGACGATGTGGAAGCTTGGAACCCTACCCCCTGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtggtagtatgagaacatatgtgattagtttcttatgttctattatgtatgacagAATCTAAGGTCGAACCTGACGATGTGGAAGCTTGGAACCCTACCCCCTGCTTTGATTGCATTCAAAGGTCATGTTCACCCAATTGACCCCTCTTGGCACA
ttatgttctattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcatgtatataaatatgtgtgtgtgtgtgtgtgtgtatgcattaggtggtagtatgagaacatatgtgattagtttcttatgttctattatgtatgacagAATCTAAGGTCGAACCTGACGATGTGGAAGCTTGGAACCCTACCCCCTGCTTTGATTGCATTCAAAGGTCATGTTCACCCAATTGACCCCTCTTGGCACA
gcatgta
- - - - - - - - gtgtgtg
- - - - - - - - - - - - - - - - - gtatgca
- - - - - - - - - - - - - - - - - - - - - - ggtggta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catatgt