Sequence
atgc intronic sequence ATGC exonic sequence...tggcttgacttgaaacagtgattttacattgtttgtcatttatatgaggtggaaatagaatattctgaataatcatctaactcagttcacatggtaacagCAACCGAGGAGGAAGCAGCAGAGGCATATGATATTGCAGCCATAAAGTTCAGAGGTGCAAACGCGGTAACCAACTTTGAGATGAATAGATATGATGTGGA
Basic information
species | Glycine max |
transcript | GLYMA01G02760.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G02760.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G65510.1 (Arabidopsis thaliana), 3'ss of exon 7
tggcttgacttgaaacagtgattttacattgtttgtcatttatatgaggtggaaatagaatattctgaataatcatctaactca---gttcacatggtaacagCAACCGAGGAGGAAGCAGCAGAGGCATATGATATTGCAGCCATAAAGTTCAGAGGTGCAAACGCGGTAACCAACTTTGAGATGAATAGATATGATGTGGA
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-----------------------gtaaaacgttatcttagtagacaaatgtcctattcttcaccctgaaaaatccagtcattgattcgtatatatgtgtatagCAACCGAAGAGGAAGCAGCAGAGGCTTATGACATTGCAGCCATAAAGTTCAGAGGAATCAACGCAGTAACTAACTTTGAGATGAACAGGTATGACATTGA
upper sequence: GLYMA01G02760.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G10510.3 (Arabidopsis thaliana), 3'ss of exon 7
tggcttgacttgaaacagtgattttacattgtttgtcatttatatgaggtggaaatagaatattctgaataatcatctaactcagttcacatggtaacagCAACCGAGGAGGAAGCAGCAGAGGCATATGATATTGCAGCCATAAAGTTCAGAGGTGCAAACGCGGTAACCAACTTTGAGATGAATAGATATGATGTGGA
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------------gtatgtaaaatcttcaaacttggtc---tagctaatttaacaatcattgtctgtggttaattagttagtcctggtgttgttgttgtagCAACGGAAGAGGAAGCAGCTGAAGCGTATGACATAGCAGCAATCAAATTCAGAGGAATAAACGCTGTAACTAACTTTGAGATGAACCGTTACGACGTTGA
upper sequence: GLYMA01G02760.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv00s1291g00010.t01 (Vitis vinifera), 3'ss of exon 7
--tggcttgacttga-aacagtgattttacattgtttgtcatttatatgaggtggaaatagaatattctgaataatcatctaactcagttcacatggtaacagCAACCGAGGAGGAAGCAGCAGAGGCATATGATATTGCAGCCATAAAGTTCAGAGGTGCAAACGCGGTAACCAACTTTGAGATGAATAGATATGATGTGGA
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ggtcactggacgtgctaaaattaggctaatgtcttaaaagaggggtctcaaaaagaagcatattgttc-acataataatcccttgtaactc--gtggtgtcagCCACCGAAGAGGAAGCAGCAGAGGCATATGACATAGCAGCCATAAAGTTCAGGGGTGTGAATGCGGTGACCAATTTCGAGATGAACCGATATGATGTGGA
upper sequence: GLYMA01G02760.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv00s0772g00020.t01 (Vitis vinifera), 3'ss of exon 6
--tggcttgacttgaaacagtgatttta-cattgtttgtcatttatatgaggtggaaatagaatattctgaataatcatctaactcagttcacatggtaacagCAACCGAGGAGGAAGCAGCAGAGGCATATGATATTGCAGCCATAAAGTTCAGAGGTGCAAACGCGGTAACCAACTTTGAGATGAATAGATATGATGTGGA
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ggtcactggacgtgctataattaggctaatgtcttaaaagaggggtctcaaaaagaagcatattgttc-acataataatcccttgtaactc--gtggtatcagCCACCGAAGAGGAAGCAGCAGAGGCATATGACATAGCAGCCATAAAGTTCAGGGGTGTGAATGCGGTGACCAATTTCGAGATGAACCGATATGATGTGGAMapped 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|17964787|gb|BM271516.1|BM271516EST: AAGAATTGGCCGTGTAGCTGGAAACAAAGATTTATACTTGGGAACATTCG CAACCGAGGAGGAAGCAGCAGAGGCATATGATATTGCAGCCATAAAGTTCA
genomic: AAGAATTGGCCGTGTAGCTGGAAACAAAGATTTATACTTGGGAACATTCGgtatacacgt ... atggtaacagCAACCGAGGAGGAAGCAGCAGAGGCATATGATATTGCAGCCATAAAGTTCA
EST:
gi|13563184|gb|BG551404.1|BG551404EST: AGCTGGAAACAAAGATTTATACTTGGGAACATTCG CAACCGAGGAGGAAGCAGCAGAGGCATATGATATTGCAGCCATAAAGTTCA
genomic: AGCTGGAAACAAAGATTTATACTTGGGAACATTCGgtatacacgt ... atggtaacagCAACCGAGGAGGAAGCAGCAGAGGCATATGATATTGCAGCCATAAAGTTCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaggtggaaatagaatattctgaataatcatctaactcagttcacatggtaacagCAACCGAGGAGGAAGCAGCAGAGGCATATGATATTGCAGCCATAAAGTTCAGAGGTGCAAACGCGGTAACCAACTTTGAGATGAATAGATATGATGTGGA
atctaac putative branch site (score: 2)
aaatagaatattctga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tggcttgacttgaaacagtgattttacattgtttgtcatttatatgaggtggaaatagaatattctgaataatcatctaactcagttcacatggtaacagCAACCGAGGAGGAAGCAGCAGAGGCATATGATATTGCAGCCATAAAGTTCAGAGGTGCAAACGCGGTAACCAACTTTGAGATGAATAGATATGATGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- gcttgac
- - - - - - - - - - - - - - -tgtttgt
- - - - - - - - - - - - - - - - - - - - - - -gaggtgg
- - - - - - - - - - - - - - - - - - - - - - - - - - aaatagaa