Sequence
atgc intronic sequence ATGC exonic sequence...ggtaaaacttgtatgaatgtctaacctacattatttcaaaggattcttggttgactgtgagatttactgtgatatgatcctaatttgataggtttttcagAAACGTTTACCCCCAGAAGCAGTGGACCTTGTCTGTAGGTTCTTTCAGTACTCTCCCAATTTGAGATGCACTGCA
Basic information
species | Glycine max |
transcript | GLYMA16G00400.2 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G00400.2 (Glycine max), 3'ss of exon 9
lower sequence: AT1G09840.2 (Arabidopsis thaliana), 3'ss of exon 11
--ggtaaaacttgtatgaatgtct--aacctacattatttcaaaggattcttggttgactgtgagat----ttactgtgatatgatcctaatt-tgat-aggtttttcagAAACGTTTACCCCCAGAAGCAGTGGACCTTGTCTGTAGGTTCTTTCAGTACTCTCCCAATTTGAGATGCACTGCA
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tagtaaaaaaaggtttaattgacttcagtgataattatctccttgagct-tcgcttctctctgaatccttattactgcatgaatattctatttatgctcagGTGTTCCAAAAACGTTTGCCACCAGAAGCAGTTGATCTTCTTTGTAGGTTCTTCCAATATTCCCCCAATTTGAGATGTACAGCT
upper sequence: GLYMA16G00400.2 (Glycine max), 3'ss of exon 9
lower sequence: AT1G57870.1 (Arabidopsis thaliana), 3'ss of exon 11
--------ggtaaaacttgt-----atgaatgtctaacctacattatttcaaaggattcttggttgactgtgagatttactgtgatatgatcctaatttgataggtttttcagAAACGTTTACCCCCAGAAGCAGTGGACCTTGTCTGTAGGTTCTTTCAGTACTCTCCCAATTTGAGATGCACTGCA
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tgctccgtgctaaaatttctcttaagtgatcatttccttggttttacttctatatagtcatgtt---cttacagcacaagaatcatgtgtttgttacttt-cagGTATTCCAGAAACGTCTGCCACCTGAAGCAGTAGATCTTCTTTGTAGGTTCTTCCAGTATTCTCCTAATTTGAGATGTACAGCG
upper sequence: GLYMA16G00400.2 (Glycine max), 3'ss of exon 9
lower sequence: Vv12s0035g01060.t01 (Vitis vinifera), 3'ss of exon 9
------------ggtaaaacttgtatgaatgtctaacctacattatttcaaaggattcttggttgactgtgagatttactgtgatatgatcctaatttgataggtttttcagAAACGTTTACCCCCAGAAGCAGTGGACCTTGTCTGTAGGTTCTTTCAGTACTCTCCCAATTTGAGATGCACTGCA
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catatgacttggtttttgactcgtatcaat---tagcatttgaggttagataagatattcttttacataggagattcatcatgaacttattctggtgtaccagGTCTTCCAAAAACGTTTACCTCCAGAAGCTGTGGATTTAGTTTGTAGGTTTTTCCAGTACTCCCCCAATCTGCGATGCACAGCTMapped 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|21256665|gb|BQ453553.1|BQ453553EST: ATTATACTGAATTTAAGTTTCCACAGATAAAACCTCATCCATGGCACAAGGTTTTTCAG
genomic: ATTATACTGAATTTAAGTTTCCACAGATAAAACCTCATCCATGGCAC-A--------AGgttcattgtc ... gg
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttggttgactgtgagatttactgtgatatgatcctaatttgataggtttttcagAAACGTTTACCCCCAGAAGCAGTGGACCTTGTCTGTAGGTTCTTTCAGTACTCTCCCAATTTGAGATGCACTGCA
tttttc CT-rich tract
taatttgata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggtaaaacttgtatgaatgtctaacctacattatttcaaaggattcttggttgactgtgagatttactgtgatatgatcctaatttgataggtttttcagAAACGTTTACCCCCAGAAGCAGTGGACCTTGTCTGTAGGTTCTTTCAGTACTCTCCCAATTTGAGATGCACTGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
-gtaaaac
- - - - -tgtatga
- - - - - - - - - - - - cctacat
- - - - - - - - - - - - - - - - - - - - - - - - - - gactgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tactgtg