Sequence
atgc intronic sequence ATGC exonic sequenceTATGTGAGCATGCATATTCATTATCTCAAAATTTGGATCCTAACAGTGAAGGCCGAGGTGTTTTACAATTCAAGACTGGTTTGATGTCTGTCATCAAGgtagaaatttattgtctacttttatgtaaaataaaagttgtgctcaggatacttgacatgtgcataccggtatgttttgatttgtctgtgactttgtggt...
Basic information
species | Glycine max |
transcript | GLYMA20G38860.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G38860.1 (Glycine max), 5'ss of exon 2
lower sequence: AT3G07160.1 (Arabidopsis thaliana), 5'ss of exon 2
TATGTGAGCATGCATATTCATTATCTCAAAATTTGGATCCTAACAGTGAAGGCCGAGGTGTTTTACAATTCAAGACTGGTTTGATGTCTGTCATCAAGgtagaaatttattgtctacttttatgtaaaataaaagttgtgctcaggatacttgacatgtgcataccggtatgttttgatttgtctgtgactttgtggt---
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TATGTGAGCATGGTTACTCACTTGCACAAAATCTCGATCCTAATAGTGAAGGCAGAGGTGTTTTACAGTTCAAAACTGGATTGATGTCTGTTATTAAGgtatttttctcttatgta-tgttagatacagtcatccatatgttt--gttaccgaccacttcattgaatatgttatttatgccattggaagctgcatgaatcc
upper sequence: GLYMA20G38860.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv06s0004g01200.t01 (Vitis vinifera), 5'ss of exon 3
TATGTGAGCATGCATATTCATTATCTCAAAATTTGGATCCTAACAGTGAAGGCCGAGGTGTTTTACAATTCAAGACTGGTTTGATGTCTGTCATCAAGgtagaaatttattgtctacttttatgtaa-aataaaagttgtgctcaggatacttgacatgtgcata-ccggtatgttttgatttgtctg-tgac-tttgtggt----
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TATGTGAGCATGCTTATTCATTGTCTCAAAATCTGGATCCTAATAGTGAGGGAAGAGGTGTATTACAGTTCAAGACTGGTTTAATGTCTGTAATCAAGgta--------ttccctgcattgatgaaatggtgaattttgttttttgcatcctttaaaaacacatggtctgcattatttcacataaaagatggcatttattatgtgc
upper sequence: GLYMA20G38860.1 (Glycine max), 5'ss of exon 2
lower sequence: PP1S67_234V6.1 (Physcomitrella patens), 5'ss of exon 2
TATGTGAGCATGCATATTCATTATCTCAAAATTTGGATCCTAACAGTGAAGGCCGAGGTGTTTTACAATTCAAGACTGGTTTGATGTCTGTCATCAAGgtagaaatttattgtctacttttatgtaaaataaaagttgtgctcaggatacttgacatgtgcataccggtatgttttgatttgtctgtgactttgtggt---------------------------------------------------------------
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TGTGCGAGTACGCGTACACGCTGGCACAAGATCTGGATCCGAATAGTGAAGGCAGAGGCGTTTTGCAATTCAAGACGGGTTTGTTGTCCGTCATTAAGgtgctctttgacctaaaactttaagctcatatta---ccaggggatagatactccatgatcacatcctgttttctctcaatccaacttcattcttataaggttctggtgcatctaggctgatgaacatacttcctggttttatggaatatgtgttcgctgcag
upper sequence: GLYMA20G38860.1 (Glycine max), 5'ss of exon 2
lower sequence: PP1S18_300V6.1 (Physcomitrella patens), 5'ss of exon 2
--TATGTGAGCATGCATATTCATTATCTCAAAATTTGGATCCTAACAGTGAAGGCCGAGGTGTTTTACAATTCAAGACTGGTTTGATGTCTGTCATCAAGgta---------gaaatttattgtctact-tttatgtaaaataaaagttgt----gctcaggatacttga-catg-tgcat-accggtatgttt--tgatttgtctgtgactttgtggt-------------
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AGTGTGTGAGCATGCGTATACTCTAGTGCAGAACTTGGATCCATATAGTGAAGGCAGAGGTGTATTGCAGTTCAAGACGGGTTTGCTGTCCGTCATCAAGgtatttctaagcacagtctataagctggagctcatttagaatacgaacttctttagcgcatcctgttcaatcctgctgcatgaccaatgtattgcatgattgatgtgtaatggaggagcatgactgttgcagMapped 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|208045069|gb|GD843761.1|GD843761EST: AAGGCCGAGGTGTTTTACAATTCAAGACTGGTTTGATGTCTGTCATCAAG CAAGAGCTGGCTAAAAGAGAAGCTGGAACCATAGATAGAAGTCAGGACATA
genomic: AAGGCCGAGGTGTTTTACAATTCAAGACTGGTTTGATGTCTGTCATCAAGgtagaaattt ... atattttcagCAAAAGCTGGCTAAAAGAGAAGCTGGAACCATAGATAGAAGTCAGGACATA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TATGTGAGCATGCATATTCATTATCTCAAAATTTGGATCCTAACAGTGAAGGCCGAGGTGTTTTACAATTCAAGACTGGTTTGATGTCTGTCATCAAGgtagaaatttattgtctacttttatgtaaaataaaagttgtgctcaggatacttgacatgtgcataccggtatgttttgatttgtctgtgactttgtggt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaataaa