Sequence
atgc intronic sequence ATGC exonic sequencegtatttttcttaagatccttttttgttattgattatgtaagagcttactgtatttttaactaaaatccactgaattatttgtcttagGTTCTCATATATTGCTATTTGTTGTCTATCAATATTACATTGCTTGGATAAAATCAATGTGGAGAAGGCAGTGAAGTACATTATAAGTTGCAAAAATATG
Basic information
species | Glycine max |
transcript | GLYMA08G11710.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G11710.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G12210.2 (Arabidopsis thaliana), 3'ss of exon 5
gtatttttcttaagatccttttttgttattgattatgtaagagcttactgtatttttaac---taaaatc----cactgaattatttgtcttagGTTCTCATATATTGCTATTTGTTGTCTATCAATATTACATTGCTTGGATAAAATCAATGTGGAGAAGGCAGTGAAGTACATTATAAGTTGCAAAAATATG
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gtgtttttccttgccatgtattacaaagacatttatatatttcctgttggtgatttcactatgttgaatcttaacagcaagctgtttatgc-agGTTTTCGTACATAGCTATTTGCTGTCTCTCAATATTGAAATGTCTTGACAAAATCAATGTGGAGAAGGCCGTTAAGTACATTGTGAGCTGCAAAAACCTG
upper sequence: GLYMA08G11710.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv15s0024g00080.t01 (Vitis vinifera), 3'ss of exon 5
gtatttttctta----agatccttttttgttattgatt-atgtaagagcttactgtatttt---taact----aaaatcc---actgaattatttgtct-tagGTTCTCATATATTGCTATTTGTTGTCTATCAATATTACATTGCTTGGATAAAATCAATGTGGAGAAGGCAGTGAAGTACATTATAAGTTGCAAAAATATG
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gtatttcttttgcctcagatcctttgttattgtggctccatgcatcctttgaatttagtttccttaagttgaggaagtctttaactatataaattttctgtagGTTCTCTTATATTGCAATCTGTTCTCTTTCTCTGTTACAACGTTTGGATAAAATTAATGTTGAGAAGGCAGTGAACTACATTGTGAGTTGCAAAAATCTG
upper sequence: GLYMA08G11710.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv12s0134g00150.t01 (Vitis vinifera), 3'ss of exon 5
---gtatttttcttaagatccttttttgttattgatta----------tgtaagagcttactgtatttttaactaaaatcc-actgaattatttgtct-tagGTTCTCATATATTGCTATTTGTTGTCTATCAATATTACATTGCTTGGATAAAATCAATGTGGAGAAGGCAGTGAAGTACATTATAAGTTGCAAAAATATG
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gtattcttttccacaagatccttcattattctgggttcatgattcctttgaagtaagtttccatatgttctggaagtctctgactatagaatttttttgtagGTTCTCTTATATTGCTATATGTTGTCTCTCTCTATTGCAATGTCTGGACAAAATCAATGTGGAGAAGGCTGTGAACTACATCGTGAGTTGCAAAAATCTGMapped 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|151397834|gb|EV267707.1|EV267707EST: AATGAAGATGGATCCTTTTCAGGGGATATGTGGGGTGAAGTTGATACGCG GTTCTCATATATTGTTATTTGTTGTCTATCAATATTACATTGCTTGGATAA
genomic: AATGAAGATGGATCCTTTTCAGGGGATATGTGGGGTGAAGTTGATACGCGgtatttttct ... tttgtcttagGTTCTCATATATTGCTATTTGTTGTCTATCAATATTACATTGCTTGGATAA
EST:
gi|151410609|gb|EV280424.1|EV280424EST: AATGAAGATGGATCCTTTTCAGGGGATATGTGGGGTGAAGTTGATACGCG GTTCTCATATATTGCTATTTGTTGTCTATCAATATTACATTGCTTGGATAA
genomic: AATGAAGATGGATCCTTTTCAGGGGATATGTGGGGTGAAGTTGATACGCGgtatttttct ... tttgtcttagGTTCTCATATATTGCTATTTGTTGTCTATCAATATTACATTGCTTGGATAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatgtaagagcttactgtatttttaactaaaatccactgaattatttgtcttagGTTCTCATATATTGCTATTTGTTGTCTATCAATATTACATTGCTTGGATAAAATCAATGTGGAGAAGGCAGTGAAGTACATTATAAGTTGCAAAAATATG
aactaaa putative branch site (score: 2)
tttgtctt putative PPT
ttactgtatttttaac 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatttttcttaagatccttttttgttattgattatgtaagagcttactgtatttttaactaaaatccactgaattatttgtcttagGTTCTCATATATTGCTATTTGTTGTCTATCAATATTACATTGCTTGGATAAAATCAATGTGGAGAAGGCAGTGAAGTACATTATAAGTTGCAAAAATATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA