Sequence
atgc intronic sequence ATGC exonic sequence...cttctaaggtagttgtaaaaaaaaacattattatttacaccatgacacaacaaataaaatatgatcgttcgttcaattcatattaattactatgtttcagGGGGAGCTTGTGGCTTTGGCGAATATGGAAGAACTGTGAATGATGGAAGTGTGGCAGGAGTGTCTAGGCTATGGAGGAATGGAAGTGGCTGTGGTGCATG
Basic information
species | Glycine max |
transcript | GLYMA05G05430.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G05430.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv00s1455g00010.t01 (Vitis vinifera), 3'ss of exon 1
cttctaaggtagttgtaaaaaaaaacattattatttacaccatgacacaacaaataaaatatgatcgttcgttcaattcatattaattactatgtttcagGGGGAGCTTGTGGCTTTGGCGAATATGGAAGAACTGTGAATGATGGAAGTGTGGCAGGAGTGTCTAGGCTATGGAGGAATGGAAGTGGCTGTGGTGCATG
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--------------------gtacgtatcttaattgatctctt--ccatgcatactttctatatatcttagatggggtgatgataat-atgttgaatcagCTGGAGCATGTGGCTTTGGCGAATATGGAAGAAGTGTTAACGGCGGCAACGTTGGCGCAGTTTCTAGGCTATACAGGAATGGGACTGGCTGCGGTGCATG
upper sequence: GLYMA05G05430.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv00s0309g00090.t01 (Vitis vinifera), 3'ss of exon 1
cttctaaggtagttgtaaaaaaaaacattatt-atttacaccatgacacaacaaataaaatatgatcgttcgttcaattcatattaattactatgtttcagGGGGAGCTTGTGGCTTTGGCGAATATGGAAGAACTGTGAATGATGGAAGTGTGGCAGGAGTGTCTAGGCTATGGAGGAATGGAAGTGGCTGTGGTGCATG
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-----------------gtacgtatcttaattgatctcttccatg-catactttgtata-tatcatagatggggtaatg---atca--tatgttgaatcagCTGGAGCATGTGGCTTTGGCGAATATGGAAGAAATGTCAACGGCGGCAACGTTGGCGCAGTTTCTAGGCTATACAGGGATGGGACTGGCTGCGGTGCATG
upper sequence: GLYMA05G05430.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv00s0309g00050.t01 (Vitis vinifera), 3'ss of exon 1
cttctaaggtagttgtaaaaaaaaacattatt-atttacaccatgacacaacaaataaaatatgatcgttcgttcaattcatattaattactatgtttcagGGGGAGCTTGTGGCTTTGGCGAATATGGAAGAACTGTGAATGATGGAAGTGTGGCAGGAGTGTCTAGGCTATGGAGGAATGGAAGTGGCTGTGGTGCATG
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-----------------gtacgtatcttaattgatctcttccatg-catactttgtata-tatcatagatggggtaatg---atca--tatgttgaatcagCTGGAGCATGTGGCTTTGGCGAATATGGAAGAAGTGTCAACGGCGGCAACGTTGGCGCAGTTTCTAGGCTATACAGGGATGGGACTGGCTGCGGTGCATGMapped 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|192315320|gb|FK009178.1|FK009178EST: TGACTCGAGAGCAACATATTATGGTAGCCCTGATTGCTATGGGAATCCAA GGGGAGCTTGTGGCTTTGGCGAATATGGAAGAACTGTGAATGATGGAAGTG
genomic: TGACTCGAGAGCAACATATTATGGTAGCCCTGATTGCTATGGGAATCCAAgtatgagcct ... tatgtttcagGGGGAGCTTGTGGCTTTGGCGAATATGGAAGAACTGTGAATGATGGAAGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cacaacaaataaaatatgatcgttcgttcaattcatattaattactatgtttcagGGGGAGCTTGTGGCTTTGGCGAATATGGAAGAACTGTGAATGATGGAAGTGTGGCAGGAGTGTCTAGGCTATGGAGGAATGGAAGTGGCTGTGGTGCATG
tattaat putative branch site (score: 2)
aattcatattaattac 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttctaaggtagttgtaaaaaaaaacattattatttacaccatgacacaacaaataaaatatgatcgttcgttcaattcatattaattactatgtttcagGGGGAGCTTGTGGCTTTGGCGAATATGGAAGAACTGTGAATGATGGAAGTGTGGCAGGAGTGTCTAGGCTATGGAGGAATGGAAGTGGCTGTGGTGCATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - aaaaaaa
- - - - - - - - - - - - - - - - - - acaccat
- - - - - - - - - - - - - - - - - - - - - - -cacaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - aataaaa