Sequence
atgc intronic sequence ATGC exonic sequence...ttttctgccatattttattatggaatttattttgttctcactttttaaccttcatatattctgctgctatttcatcatatctcatgttaatttgtatcagGGTATTGGCAATGGTCTGCCATTAGGAGCTGTAGTTACAACTCCAGAAATTGCAAGTGTGTTGGCCCAAAAGATTCAATTTAATACCTTTGGTGGGAACC
Basic information
species | Glycine max |
transcript | GLYMA08G14850.2 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G14850.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G124353_T01 (Zea mays), 3'ss of exon 5
-----------------------ttttctgccatattttattatggaatttattttgttctcactttttaaccttcatatattctgctgctatttcatcatatctcatgttaatttgtatcagGGTATTGGCAATGGTCTGCCATTAGGAGCTGTAGTTACAACTCCAGAAATTGCAAGTGTGTTGGCCCAAAAGATTCAATTTAATACCTTTGGTGGGAACC
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gtctatctcctactctaaaatgcaagcatgtactaatcaaccctgggggaaatgtcttctgtttttttttgtggcaacatctttccatactgat--gtgacaatttgttccccctggtttcagGGAATTGGCAATGGCCTACCATTGGGGGCAGTTGTGACAACTCCTGAGATTGCAAGTGTGTTAGCTCAAAAAATCCAATTTAACACATTTGGTGGAAATC
upper sequence: GLYMA08G14850.2 (Glycine max), 3'ss of exon 5
lower sequence: AT4G39660.1 (Arabidopsis thaliana), 3'ss of exon 5
---------------------------------------ttttctgccatattttattatggaatttattttgtt---ctcactttttaaccttcatatattctgctgctatttcatcatatctcatgttaatt-tgtat-cagGGTATTGGCAATGGTCTGCCATTAGGAGCTGTAGTTACAACTCCAGAAATTGCAAGTGTGTTGGCCCAAAAGATTCAATTTAATACCTTTGGTGGGAACC
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gtttgtcaaaagaagttgttaccacttgctctgttcttacttcttaccatatgctatgttctccattctttgactacgtttactgttatatacttaaagaaacatgtgtagttcactaataattgacaccggttatattcacagGGAATTGGAAATGGATTGCCATTAGGAGCTGTGGTGACTACACCAGAAATCGCAAGTGTTTTAGCTAGCAAGATTCTGTTCAACACTTTTGGTGGGAACC
upper sequence: GLYMA08G14850.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv07s0031g01330.t01 (Vitis vinifera), 3'ss of exon 5
----------------------------------------------------------------------------------------------ttttctgccatattttattatggaatttattttg--ttctcactttttaacct-tcatatattctgctgctatttcatcatatctcatgt-taatttgtatcagGGTATTGGCAATGGTCTGCCATTAGGAGCTGTAGTTACAACTCCAGAAATTGCAAGTGTGTTGGCCCAAAAGATTCAATTTAATACCTTTGGTGGGAACC
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gtttctctagtcatccttatagtcttttatggtttttacccatcctgggtggcattgatagtaaaattctatattgcatttctttcttggtaacttgttttctagatgc-attacaactttcatttcagtttattatttcatgtcttgtaaaatattgctcaaccattccactgaatttcagaaataacatttatcagGGCATTGGCAATGGTTTACCATTAGGAGCAGTGGTGACAACACCAGAAATAGCAGATGTATTGGCTCAGAAAATTCAATTTAACACTTTCGGTGGGAACC
upper sequence: GLYMA08G14850.2 (Glycine max), 3'ss of exon 5
lower sequence: PP1S32_198V6.1 (Physcomitrella patens), 3'ss of exon 5
---ttttctgccatattttattatggaatttattttgttctcactttttaaccttcatatattctgctgctatttcatcatatctcatgttaatttgtatcagGGTATTGGCAATGGTCTGCCATTAGGAGCTGTAGTTACAACTCCAGAAATTGCAAGTGTGTTGGCCCAAAAGATTCAATTTAATACCTTTGGTGGGAACC
| | ||||| | || | | ||| || | | | || | | || | ||| | || | || | | | ||||| || || ||||| |||||||||| ||||||||| || || |||||||||||| ||| | || ||| | || || || || | ||| || || |
ttttaattaaccatacaacagcatttagtacattgtgctttggatgcttgtcaggagtgaatcagaac---agcgcatttcaaatcgttgtattatattgcagGGAATCGGTAATGGGCTGCCATTAGCAGCTGTAGTGACTACACCAGAAATTGCACAAGTGCTTGCACAACGATTGCATTTCAACACATATGGGGGCAATCMapped 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|58017612|gb|CX704354.1|CX704354EST: GGGGATTTGAGACACAGGGTGTCATTCCTGATATAGTTACCATGGCAAAG GGTATTGGCAATGGTCTGCCATTAGGAGCTGTAGTTACAACTCCAGAAATT
genomic: GGGGATTTGAGACACAGGGTGTCATTCCTGATATAGTTACCATGGCAAAGgtctgtacca ... tttgtatcagGGTATTGGCAATGGTCTGCCATTAGGAGCTGTAGTTACAACTCCAGAAATT
EST:
gi|58024685|gb|CX711426.1|CX711426EST: GGGGATTTGAGACACAGGGTGTCATTCNTGATATAGTTACCATGGCAAAG GGTATTGGCAATGGTCTGCCATTAGGAGCTGTAGTTACAACTCCAGAAATT
genomic: GGGGATTTGAGACACAGGGTGTCATTCCTGATATAGTTACCATGGCAAAGgtctgtacca ... tttgtatcagGGTATTGGCAATGGTCTGCCATTAGGAGCTGTAGTTACAACTCCAGAAATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaccttcatatattctgctgctatttcatcatatctcatgttaatttgtatcagGGTATTGGCAATGGTCTGCCATTAGGAGCTGTAGTTACAACTCCAGAAATTGCAAGTGTGTTGGCCCAAAAGATTCAATTTAATACCTTTGGTGGGAACC
atgttaatttgtat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttctgccatattttattatggaatttattttgttctcactttttaaccttcatatattctgctgctatttcatcatatctcatgttaatttgtatcagGGTATTGGCAATGGTCTGCCATTAGGAGCTGTAGTTACAACTCCAGAAATTGCAAGTGTGTTGGCCCAAAAGATTCAATTTAATACCTTTGGTGGGAACC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG