Sequence
atgc intronic sequence ATGC exonic sequencegtgaagtcttcttttatccttttattattctttaactaatatattttgaattcatttcctcactttaatttccttatgctatccctttatattagtagGCAGAAACTCTAAGACATGCTCCTGGAGTGAAATCTGTTGAGAGGGACTGGAAAGTGAGGAGACTTACAACACATACCCCACAATTTTTAGGGCTTCCAA
Basic information
species | Glycine max |
transcript | GLYMA13G00580.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G00580.1 (Glycine max), 3'ss of exon 2
lower sequence: AT4G30020.1 (Arabidopsis thaliana), 3'ss of exon 3
gtgaagtcttcttttatccttttattattctttaactaatatattttgaattcatttcctcactttaatttccttatgctatccctttatattagtagGCAGAAACTCTAAGACATGCTCCTGGAGTGAAATCTGTTGAGAGGGACTGGAAAGTGAGGAGACTTACAACACATACCCCACAATTTTTAGGGCTTCCAA
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gtgaaatccaattcga-------gatagtctctacaaattacattt------cagtgtttaatctgtagtcccttacagttttcccctatattagtagGCGGAAATGCTTCGTCGCGCGCCTGGTGTGAAATCTGTGGATAGAGATTGGAAAGTTAGGAAACTTACTACACATACACCACAGTTTTTGGGATTACCAA
upper sequence: GLYMA13G00580.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv11s0103g00550.t01 (Vitis vinifera), 3'ss of exon 3
-----------------------------------------------------gtgaa-gtcttcttttatccttttattattctttaactaatatattttga----att--catttcctcactttaatttccttatgctatccctttatattagtagGCAGAAACTCTAAGACATGCTCCTGGAGTGAAATCTGTTGAGAGGGACTGGAAAGTGAGGAGACTTACAACACATACCCCACAATTTTTAGGGCTTCCAA
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gtgaaaccttgggcaattcttttgttcttattcatatatatatatatatatatatatatatatatatatatattttaatgtttacagcaattttctgtattgatgacattactatctttgcattctcattttctaatga-atcccactatattagtagGCAGAAGTCCTTAGACAGGCCCCAGGTGTGAAATCTGTGGAGAGAGATTGGAAGGTGAGAAGACTTACAACACATACTCCACAGTTTCTGGGGCTTCCAAMapped 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|208116685|gb|GD917193.1|GD917193EST: GCTATCGACATCTTATTAATGGGTTTGCTGTTCATATTTCACCAGAACAG GCAGAAACTCTAAGACATGCTCCTGGAGTGAAATCTGTTGAGAGGGACTGG
genomic: GCTATCGACATCTTATTAATGGGTTTGCTGTTCATATTTCACCAGAACAGgtgaagtctt ... atattagtagGCAGAAACTCTAAGACATGCTCCTGGAGTGAAATCTGTTGAGAGGGACTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttgaattcatttcctcactttaatttccttatgctatccctttatattagtagGCAGAAACTCTAAGACATGCTCCTGGAGTGAAATCTGTTGAGAGGGACTGGAAAGTGAGGAGACTTACAACACATACCCCACAATTTTTAGGGCTTCCAA
tccctttat CT-rich tract
tttaatttccttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaagtcttcttttatccttttattattctttaactaatatattttgaattcatttcctcactttaatttccttatgctatccctttatattagtagGCAGAAACTCTAAGACATGCTCCTGGAGTGAAATCTGTTGAGAGGGACTGGAAAGTGAGGAGACTTACAACACATACCCCACAATTTTTAGGGCTTCCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA