Sequence
atgc intronic sequence ATGC exonic sequencegtattgttggtgattattgttatgataatttttttctaaacgtgttgccaacttttgtcaacagtttatgtttttatccgcactgcagGGATGCATGGGACATGGCTGCTGAGCTCTGCCTCTCTCAACTTCCATCTTTAGTTGAGGATCCTAATTCTGAATTTCAG
Basic information
species | Glycine max |
transcript | GLYMA18G44210.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G44210.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os11g01872.1 (Oryza sativa), 3'ss of exon 7
gtattgttggtgattattgttatgataatttttttctaaacgtgttgccaacttttgtcaacagtttatgttttt----atccgcactgcagGGATGCATGGGACATGGCTGCTGAGCTCTGCCTCTCTCAACTTCCATCTTTAGTTGAGGATCCTAATTCTGAATTTCAG
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---------gtaattgatggcactagccattctttttata-gtttagctacctcttctccattttctttaatttcctaaatttcaattttagGGATGCATGGGACATGGCTGCAGAGATCTGCCTTTCTAAGCTTCCTCAATTAATTGCTGATCCTAATGCAGAGTTTCAG
upper sequence: GLYMA18G44210.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os12g01922.1 (Oryza sativa), 3'ss of exon 8
gtattgttggtgattattgttatgataatttttttctaaacgtgttgccaacttttgtcaacagtttatgttttt----atccgcactgcagGGATGCATGGGACATGGCTGCTGAGCTCTGCCTCTCTCAACTTCCATCTTTAGTTGAGGATCCTAATTCTGAATTTCAG
|| ||| || | | || ||| || | || | || | || || | | | | | ||| || | | ||||||||||||||||||||||| ||| ||||||| ||| | ||||| ||| ||| ||||||||| | || ||||||
---------gtaattgatggcactagccattctttttata-gtttagctacctcttctgcattttctttaatttcctaaattttaattttagGGATGCATGGGACATGGCTGCAGAGATCTGCCTTTCTAAGCTTCCTCAATTAATTGCTGATCCTAATGCAGAGTTTCAG
upper sequence: GLYMA18G44210.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G048067_T02 (Zea mays), 3'ss of exon 8
gtattgttggtgattattgttatgataatttttttctaaacgtgttgccaacttttgtcaacagtttatgtttttatccgcactgcagGGATGCATGGGACATGGCTGCTGAGCTCTGCCTCTCTCAACTTCCATCTTTAGTTGAGGATCCTAATTCTGAATTTCAG
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---------gtaactaacctgac--ttgttcttttttttgcat-taactaccttttgt--gtgatttgtaacatg--ctaaatctcagGGATGCATGGGACATGGCTGCTGAGATTTGCCTTTCCAAGCTTCCTCAGTTAATTGCTGATCCAAATGCAGAGTTTCAG
upper sequence: GLYMA18G44210.1 (Glycine max), 3'ss of exon 8
lower sequence: AT3G08850.1 (Arabidopsis thaliana), 3'ss of exon 8
gtattgttggtgattattgttatgataatttttttctaaacgtgttgccaacttttgtcaacagtttatgtttttatccgcactgcagGGATGCATGGGACATGGCTGCTGAGCTCTGCCTCTCTCAACTTCCATCTTTAGTTGAGGATCCTAATTCTGAATTTCAG
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gtattcaacaagaaccatattcttctgttatgtaaaatgttatgtgtctagattttgact-cagctatccgttgcat--gcttttcagGGATGCATGGGACATGGCTGCTGAAATCTGTCTTTCTCAGCTTCCCCAACTTGTTCTGGACCCAAGCACAGAGTTCCAG
upper sequence: GLYMA18G44210.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G01770.1 (Arabidopsis thaliana), 3'ss of exon 8
gtattgttggtgattattgttatgataatttttttctaaacgtgttgccaacttttgtcaacagtttatgtttttatccgcactgcagGGATGCATGGGACATGGCTGCTGAGCTCTGCCTCTCTCAACTTCCATCTTTAGTTGAGGATCCTAATTCTGAATTTCAG
| |||| |||| || | |||| || |||| | | | | | | | | || | | | ||||||||||||||||||||||||||| ||||||| ||||| ||||| || || ||| || ||| | || ||||||
---gtattggacgttatccctagtttgcattttgatgaattgtgtgtctgagctcttt-----acctccgctaatagctgttttccagGGATGCATGGGACATGGCTGCTGAAATCTGCCTTTCTCAGCTTCCTCAATTTTTTCTGGACCCAAATACGGAGTTTCAG
upper sequence: GLYMA18G44210.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv08s0058g00890.t01 (Vitis vinifera), 3'ss of exon 8
gtat-tgttggtgattattgttatgataatttttttctaaacgtgttgccaacttttgtcaacagtttatgtttt-tatccgcactgcagGGATGCATGGGACATGGCTGCTGAGCTCTGCCTCTCTCAACTTCCATCTTTAGTTGAGGATCCTAATTCTGAATTTCAG
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gtacctactggaaatactagata-agtaattttgtt--aagtgttcaataatccatttgtctcataatgtgccatgcatgtgtgctatagGGATGCATGGGACATGGCTGCTGAAATCTGCCTTTCTCAGCTTAAGTCATTGGTTGATGATCCCAATGCAGAGTTTCAGMapped 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|6916382|gb|AW397912.1|AW397912EST: TCTCCTGTCTCTCACCCAATGTTACCTCCGACCCATCAGCATCATATGTG GGATGCATGGGACATGGCTGCTGAGCTCTGCCTCTCTCAACTTCCATCTTT
genomic: TCTCCTGTCTCTCACCCAATGTTACCTCCGACCCATCAGCATCATATGTGgtattgttgg ... cgcactgcagGGATGCATGGGACATGGCTGCTGAGCTCTGCCTCTCTCAACTTCCATCTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctaaacgtgttgccaacttttgtcaacagtttatgtttttatccgcactgcagGGATGCATGGGACATGGCTGCTGAGCTCTGCCTCTCTCAACTTCCATCTTTAGTTGAGGATCCTAATTCTGAATTTCAG
ttctaaa putative branch site (score: 2)
tttttatcc putative PPT
agtttatgtttttat 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 |
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gtattgttggtgattattgttatgataatttttttctaaacgtgttgccaacttttgtcaacagtttatgtttttatccgcactgcagGGATGCATGGGACATGGCTGCTGAGCTCTGCCTCTCTCAACTTCCATCTTTAGTTGAGGATCCTAATTCTGAATTTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT