Sequence
atgc intronic sequence ATGC exonic sequence...agatcgaaaaattattgcaggctattttaccttgtatgcgatgatgcatccctcatctttgagatatcatacttaagaagtctatgaccctctttcacagGTGCGAGATGAAATTGAACATCTGTTAGATGACAATGAAGATATGGCACAACTATATTTGACAAGGAAGTGGTTGCAGAATCAACAATTTGAGGAGGCTC
Basic information
species | Glycine max |
transcript | GLYMA08G13340.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G13340.2 (Glycine max), 3'ss of exon 2
lower sequence: AT4G28580.1 (Arabidopsis thaliana), 3'ss of exon 2
agatcgaaaaattattgcaggctattttaccttgtatgcgatgatgcatccctcatctttgagatatcatacttaagaagtctatgaccctctttcacagGTGCGAGATGAAATTGAACATCTGTTAGATGACAATGAAGATATGGCACAACTATATTTGACAAGGAAGTGGTTGCAGAATCAACAATTTGAGGAGGCTC
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-------------gtaaaaggttattaccttttcca-atgatactataatgtt-gtgtgttggacgg-aaacataaaagctatagtacattatt---cagGTGAGAGATGAAATCGAACATTTCTTAGATGACAAGGAAGACATGGAAGACTTATACTTAACGAGGAAATGGATTCAAAACCAACAAACCGAGGCAGCAT
upper sequence: GLYMA08G13340.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv12s0034g02550.t01 (Vitis vinifera), 3'ss of exon 2
agatcgaaaaattattgcaggctattttaccttgtatgcgatgatgcatccctcatctttgagatatcatact--taagaagtctatgacc-ctctttcacagGTGCGAGATGAAATTGAACATCTGTTAGATGACAATGAAGATATGGCACAACTATATTTGACAAGGAAGTGGTTGCAGAATCAACAATTTGAGGAGGCTC
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--aaaaaacaagcatatttgaccttagaatattgcaaattttgctgc-tgcatcatctacatattgtaactttattgaggaaggaatatctgttcaatgtcagGTGAGGGATGAACTTGAACACCTTTTAGATGACAATGAGGACATGGCAGATTTATACTTAACAAGGAAGTGGATCCAGAATCAGCAAAATGAGGCTTTGTMapped 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|58018095|gb|CX704837.1|CX704837EST: AAGAGTAATCTTACGCGGTTGCTGGCACGAGTGCAGAAG GTGCGAGATGAAATTGAACATCTGTTAGATGACAATGAAGATATGGCACAA
genomic: AAGAGTAATCTTACGCGGTTGCTGGCACGAGTGCAGAAGgtatgttttt ... tctttcacagGTGCGAGATGAAATTGAACATCTGTTAGATGACAATGAAGATATGGCACAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcatccctcatctttgagatatcatacttaagaagtctatgaccctctttcacagGTGCGAGATGAAATTGAACATCTGTTAGATGACAATGAAGATATGGCACAACTATATTTGACAAGGAAGTGGTTGCAGAATCAACAATTTGAGGAGGCTC
ccctctttcac CT-rich tract
atatcata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agatcgaaaaattattgcaggctattttaccttgtatgcgatgatgcatccctcatctttgagatatcatacttaagaagtctatgaccctctttcacagGTGCGAGATGAAATTGAACATCTGTTAGATGACAATGAAGATATGGCACAACTATATTTGACAAGGAAGTGGTTGCAGAATCAACAATTTGAGGAGGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG