Sequence
atgc intronic sequence ATGC exonic sequence...tcttttttatcttctgtctgaatatatgctgcagttttagtgtgaatccatttttttcttgtattattaactttgttttttaatttctttgtgagaccagATTAAACCATTGAACCATTCTCATGATTTACCACCACCAGGAAAAAAGGGCCGTCCTTACATTTGTAGTTGCATGATTTTCCTCCGCCCTACCAATGGAG
Basic information
species | Glycine max |
transcript | GLYMA08G09360.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G09360.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv13s0019g04760.t01 (Vitis vinifera), 3'ss of exon 2
----tcttttttatcttctgtctgaatatatgctgcagttttagtgtgaatccatttttttcttgtattattaactttgttttttaatttctttgtgagaccagATTAAACCATTGAACCATTCTCATGATTTACCACCACCAGGAAAAAAGGGCCGTCCTTACATTTGTAGTTGCATGATTTTCCTCCGCCCTACCAATGGAG
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gcaatgtatcctatatcttgaaggtgcatattcttatcatccataaagtgtgcaattttgg-ttgctttatccatt---tcttttgttctttttgggtggccagGTGAAACCTTTGAACCACTCTCATGATTTGCCACCTCCAGGGAAAAAGGGCCGCACCTATATATGCAGCTGCATGATTTTCATGCGCCCCACTGATGGAG
upper sequence: GLYMA08G09360.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv15s0046g01630.t01 (Vitis vinifera), 3'ss of exon 2
--tcttttttatcttctgtctgaatatatgctgcagttttagtgtgaatccatttttttcttgtatta--ttaactttgttttttaatttctttgtgagaccagATTAAACCATTGAACCATTCTCATGATTTACCACCACCAGGAAAAAAGGGCCGTCCTTACATTTGTAGTTGCATGATTTTCCTCCGCCCTACCAATGGAG
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tgtattgcttgccttgaagttgtacttctacc-cagcatacacttctaccgttttggttgtcacattaagttatatacatatttt---ctctttgggtgaccagGTGAAACCTCTGAACCACTCTCATGATTTACCACCTCCAGGGAAAAAAGGGCGCACTTACATTTGCAGCTGCATGATTTTCATGCGCCCCACCAATGGAGMapped 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|193410466|gb|FK380261.1|FK380261EST: CTTATCTGCAAGGGAACCATGATGTGTACTTTACAGATGATATGACTGCA ATTAAACCATTGAACCATTCTCATGATTTACCACCACCAGGAAAAA-GGGC
genomic: CTTATCTGCAAGGGAACCATGATGTGTACTTTACAGATGATATGACTGCAgtaagtgatc ... gtgagaccagATTAAACCATTGAACCATTCTCATGATTTACCACCACCAGGAAAAAAGGGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atccatttttttcttgtattattaactttgttttttaatttctttgtgagaccagATTAAACCATTGAACCATTCTCATGATTTACCACCACCAGGAAAAAAGGGCCGTCCTTACATTTGTAGTTGCATGATTTTCCTCCGCCCTACCAATGGAG
tttctttgt CT-rich tract
tttttttcttgtatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcttttttatcttctgtctgaatatatgctgcagttttagtgtgaatccatttttttcttgtattattaactttgttttttaatttctttgtgagaccagATTAAACCATTGAACCATTCTCATGATTTACCACCACCAGGAAAAAAGGGCCGTCCTTACATTTGTAGTTGCATGATTTTCCTCCGCCCTACCAATGGAG
- - - - - -ttctgtc
- - - - - - - - - - - - -atgctgc
- - - - - - - - - - - - - - - - - - -tagtgtg