Sequence
atgc intronic sequence ATGC exonic sequence...accagcaaggtacctgttcgtctgtgtctggttttatatggtttcttttatttcattgttatcatctttctgacgtggatcagaatttgattctttgcagATCAGCTTTCAGGAGTTTAAAAACAAGCTTTTGGAACCAGGATTAGTAGACCATATTGTTGTCTCAGATAAATCAGTTGCCAAAGTATATGTAAGGAACA
Basic information
species | Glycine max |
transcript | GLYMA11G14640.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G14640.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv06s0004g05030.t01 (Vitis vinifera), 3'ss of exon 4
--accagcaaggtacctgttcgtctgt-gtctggttttatatggtttcttttatttcattgttatcatctttctgacgtggatcagaatttgattctttgcagATCAGCTTTCAGGAGTTTAAAAACAAGCTTTTGGAACCAGGATTAGTAGACCATATTGTTGTCTCAGATAAATCAGTTGCCAAAGTATATGTAAGGAACA
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atatgttgatgacttgtgcctgccagtcatttcattttttccaatttgcctgtctacatatgatttagctttttaatgttggtt---tctgaatatgttgcagATTAGTTTCCAAGAGTTTAAAAACAAGCTTCTGGAACCAGGTTTGGTGGACCACATAGTTGTTTCTAATAAATCAGTTGCAAAGGTGTATGTAAGGGGCT
upper sequence: GLYMA11G14640.1 (Glycine max), 3'ss of exon 1
lower sequence: EFJ17143 (Selaginella moellendorffii), 3'ss of exon 3
accagcaaggtacctgttcgtctgtgtctggttttatatggtttcttttatttcattgttatcatctttctgacgtggatcagaatttgattctttgcagATCAGCTTTCAGGAGTTTAAAAACAAGCTTTTGGAACCAGGATTAGTAGACCATATTGTTGTCTCAGATAAATCAGTTGCCAAAGTATATGTAAGGAACA
|| ||||| || || || || | || | | || ||| |||||||||||| |||||||| |||||||||||| |||| | || | || || || || | || |||| | || || | ||||||||| |
-----------------------------------gtaaagtttcgattgcttt-cagtcataaggaaaatgttctaactatcaa--cacttcgcagCAGATCAGCTTCCAGGAGTTCAAAAACAAGCTTCTGGAGACTGGTCTCGTTGATCACATAGAGGTTGTGAATAAGGCGGTCGCAAGAGTATATGTTCGCG---Mapped 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|207825010|gb|GD797198.1|GD797198EST: TGGGGCTATTTCTTACATCCTTTTCGTTTGGTCATCGTGAACAAGAGGAG ATCAGCTTTCAGGAGTTTAAAAACAAGCTTTTGGAACCAGGATTAGTAGAC
genomic: TGGGGCTATTTCTTACATCCTTTTCGTTTGGTCATCGTGAACAAGAGGAGgtaagcacaa ... ttctttgcagATCAGCTTTCAGGAGTTTAAAAACAAGCTTTTGGAACCAGGATTAGTAGAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttatttcattgttatcatctttctgacgtggatcagaatttgattctttgcagATCAGCTTTCAGGAGTTTAAAAACAAGCTTTTGGAACCAGGATTAGTAGACCATATTGTTGTCTCAGATAAATCAGTTGCCAAAGTATATGTAAGGAACA
ttctttgc CT-rich tract
aatttgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
accagcaaggtacctgttcgtctgtgtctggttttatatggtttcttttatttcattgttatcatctttctgacgtggatcagaatttgattctttgcagATCAGCTTTCAGGAGTTTAAAAACAAGCTTTTGGAACCAGGATTAGTAGACCATATTGTTGTCTCAGATAAATCAGTTGCCAAAGTATATGTAAGGAACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
accagca
- - - - -gtacctg
- - - - - - - - - - - -gtgtctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttctgac