Sequence
atgc intronic sequence ATGC exonic sequencegcaagtaactgagttacaccattttgtgcctttcttgcttacttttggttatcagacttgtattgatgctcatctaatatgatgttttctcttttgtttcagATCCATCTGGCTTCATCTTGTTTCCTCTTGTTGTTCACTCATTCGATCTGATAGTTTCATCAGCTGGAATATTTTCTATTAGGGGTACACGTGAAACTGG
Basic information
species | Glycine max |
transcript | GLYMA07G00350.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G00350.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os02g33490.1 (Oryza sativa), 3'ss of exon 8
gcaagtaactgagttacaccattttgtgcctttcttgcttacttttggttatcagacttgtattgatgctcatctaatatgat--gttttctcttttgtttcagATCCATCTGGCTTCATCTTGTTTCCTCTTGTTGTTCACTCATTCGATCTGATAGTTTCATCAGCTGGAATATTTTCTATTAGGGGTACACGTGAAACTGG
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----gtgcctggttttgagtaaaatcgagattcatcttttcttctgcaataacttttttttggtaatatttctactttataatcagcattctttgctaatgcagATCCCTCAGGCTTTATACTGTTTCCTCTTGTTGTTCATTCATTTGATCTGGTGATCTCATCAGTTGGAATACTCTCAATTCGGGGAACACGTGACTCTGG
upper sequence: GLYMA07G00350.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G075900_T01 (Zea mays), 3'ss of exon 8
gcaagtaactgagttacaccattttgtgcctttcttgcttacttttggttatcagacttgtattgatgctcatctaa----tatgat--gttttctcttttgtttcagATCCATCTGGCTTCATCTTGTTTCCTCTTGTTGTTCACTCATTCGATCTGATAGTTTCATCAGCTGGAATATTTTCTATTAGGGGTACACGTGAAACTGG
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-------gctttgttgttgc-tgttgtgtttttggtacaatggcacacatatcgcacctttgtaatcgctctattatggtccataatcagctttgtttattattgcagATCCGTCTGGCTTTATTTTGTTTCCTCTTGTTGTGCATTCATTTGATTTGGTGGTGTCATCAGTCGGAATTCTCTCAATCAGAGGAACACGTGACTCTGG
upper sequence: GLYMA07G00350.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv09s0054g00700.t01 (Vitis vinifera), 3'ss of exon 8
-gcaagtaact-gagttacaccattttgtgcctttcttgcttacttttggttatcagacttgtattgatgctcatctaatatgatgttttctcttttgtttcagATCCATCTGGCTTCATCTTGTTTCCTCTTGTTGTTCACTCATTCGATCTGATAGTTTCATCAGCTGGAATATTTTCTATTAGGGGTACACGTGAAACTGG
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tgatcgtgctttgacctttgccata--gatccattactgctttcgtcggtttgtttgttttctatagat--tgatcctttcaaatattgattatgttcatgcagATCCATCTGGTTTCATCCTGTTTCCTCTTGTCATTCACTCTTTTGACCTGGTAATATCATCGGTTGGAATATTTTCAATAAGGGGGACACGTGACTCTGGMapped 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|18692782|gb|BM521630.1|BM521630EST: CAGTGCCATGATACTTGGTGGAACAATGGCACAACGCTGTAAAATTGCAG ATCCATCTGGCTTCATCTTGTTTCCTCTTGTTGTTCACTCATTCGATCTGA
genomic: CAGTGCCATGATACTTGGTGGAACAATGGCACAACGCTGTAAAATTGCAGgcaagtaact ... tttgtttcagATCCATCTGGCTTCATCTTGTTTCCTCTTGTTGTTCACTCATTCGATCTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttatcagacttgtattgatgctcatctaatatgatgttttctcttttgtttcagATCCATCTGGCTTCATCTTGTTTCCTCTTGTTGTTCACTCATTCGATCTGATAGTTTCATCAGCTGGAATATTTTCTATTAGGGGTACACGTGAAACTGG
atctaat putative branch site (score: 3)
tgttttctcttttgtt putative PPT
taatatgatgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcaagtaactgagttacaccattttgtgcctttcttgcttacttttggttatcagacttgtattgatgctcatctaatatgatgttttctcttttgtttcagATCCATCTGGCTTCATCTTGTTTCCTCTTGTTGTTCACTCATTCGATCTGATAGTTTCATCAGCTGGAATATTTTCTATTAGGGGTACACGTGAAACTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA