Sequence
atgc intronic sequence ATGC exonic sequence...ctctggatcattctcattgtgtttaggattgtaaatgttctgaaacaagcttaactttgtttaccacaagacagggataaaattcatcttatgtgaacagGTCTTGGCCATTGAGGAGGTCTTCAAGAATAGGGTGACAAATGTAGTGTTTATGGGAATGGGTGAACCAATGTTAAACCTGAAGGCAGTACTTGAAGCAC
Basic information
species | Glycine max |
transcript | GLYMA14G07450.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G07450.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os01g74190.1 (Oryza sativa), 3'ss of exon 5
ctctggatcattctcattgtgtttaggattgtaaatgttctgaaacaagcttaactttgtttaccacaagacagggataaaattcatcttatgtgaacagGTCTTGGCCATTGAGGAGGTCTTCAAGAATAGGGTGACAAATGTAGTGTTTATGGGAATGGGTGAACCAATGTTAAACCTGAAGGCAGTACTTGAAGCAC
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--gttgtctctccacaacccacctagtacagcgtttatgtacaaaaaagataaattgtgcttgttcttgcacaacagattaatat-tctggcgttg-cagGTTTTGGCCATAGAGGAGACGTTCCAACACAGGGTGACAAATGTAGTGTTCATGGGGATGGGTGAGCCTATGTTGAACCTGAAATCAGTTTTAGAGGCAC
upper sequence: GLYMA14G07450.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G168412_T01 (Zea mays), 3'ss of exon 4
---ctctggatcattctcattgtgtttaggattgtaaatgttctgaaacaagcttaactttgttta--ccacaagacagggataaaattcatcttatgtgaacagGTCTTGGCCATTGAGGAGGTCTTCAAGAATAGGGTGACAAATGTAGTGTTTATGGGAATGGGTGAACCAATGTTAAACCTGAAGGCAGTACTTGAAGCAC
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gaaccttcaaccacatgagat-tgttgaacag-gtcctccctcagcaacccctctgtctttcttcatccctcaatgcaacgttaaatattatgccatt---gcagGTGTTGGCCATCGAGGAGACGTTCAAACACAGGGTGACAAATGTTGTGTTCATGGGGATGGGTGAGCCCATGATGAACCTCAAGTCAGTTCTAGAAGCAC
upper sequence: GLYMA14G07450.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G168412_T02 (Zea mays), 3'ss of exon 5
ctctggatcattctcattgtgtttaggattgtaaatgttctgaaacaagcttaactttgttta--ccacaagacagggataaaattcatcttatgtgaacagGTCTTGGCCATTGAGGAGGTCTTCAAGAATAGGGTGACAAATGTAGTGTTTATGGGAATGGGTGAACCAATGTTAAACCTGAAGGCAGTACTTGAAGCAC
|| || | ||| | |||| || | || ||| || | |||| | || || ||||| |||||||| |||||| ||||| | |||||||||||||| ||||| ||||| |||||||| || ||| | ||||| ||| |||| || |||||||
------------------------------gtcctccctcagcaacccctctgtctttcttcatccctcaatgcaacgttaaatattatgccatt---gcagGTGTTGGCCATCGAGGAGACGTTCAAACACAGGGTGACAAATGTTGTGTTCATGGGGATGGGTGAGCCCATGATGAACCTCAAGTCAGTTCTAGAAGCAC
upper sequence: GLYMA14G07450.1 (Glycine max), 3'ss of exon 5
lower sequence: AT2G39670.1 (Arabidopsis thaliana), 3'ss of exon 5
---------ctctggatcattctcattgtgtttaggattgtaaatgttctgaaacaagcttaactttgtttaccacaagacagggataaaattcatcttatgtgaacagGTCTTGGCCATTGAGGAGGTCTTCAAGAATAGGGTGACAAATGTAGTGTTTATGGGAATGGGTGAACCAATGTTAAACCTGAAGGCAGTACTTGAAGCAC
|| | || | || | ||| ||| | | | || |||| | | || | || | ||| | || || |||| ||||| || ||||| || |||||| |||||||||||||||| || || |||||||||||||| || ||||| ||||| ||| |||||||||| || |
tttagaagcagttgtgtgatcccatttaagacccggaagaagaat-tcttagtaaaatgttaatgtggcttgtgttta--caagtgtaa------ttttgaatgtcaagGTGTTGGCTATCGAGGACGTGTTCAAGCATAGGGTGACAAATGTGGTTTTCATGGGAATGGGTGAGCCGATGTTGAACCTAAAGTCAGTACTTGATGCTC
upper sequence: GLYMA14G07450.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv13s0019g01070.t01 (Vitis vinifera), 3'ss of exon 5
ctctggatcattctcattgtg-tttaggattgtaaatgtt-ctgaaacaa-gcttaactttgtttaccacaagaca--gggataaaattcatcttatgtgaacagGTCTTGGCCATTGAGGAGGTCTTCAAGAATAGGGTGACAAATGTAGTGTTTATGGGAATGGGTGAACCAATGTTAAACCTGAAGGCAGTACTTGAAGCAC
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-----aacttctatgtttaagatttgacagcatcagtttcactaaagctctgtgtttctttattcaacttagtacattgtgttttctattttactatgtgcacagGTCTTGGCAATAGAGGAGATCTTTAAGCAAAGGGTGACAAATGTGGTGTTTATGGGAATGGGCGAACCAATGTTGAACCTGAAATCAGTTATTGAAGCTCMapped 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|19054222|gb|BM732889.1|BM732889EST: GAAAAGGGGGGTTTTCAAGGAATCTTCAGAGACATGAAATCATTGAACAG GTCTTGGCCATTGAGGAGGTCTTCAAGAATAGGGTGACAAATGTAGTGTTT
genomic: GAAAAGGGGGGTTTTCAAGGAATCTTCAGAGACATGAAATCATTGAACAGgtttgtgtca ... atgtgaacagGTCTTGGCCATTGAGGAGGTCTTCAAGAATAGGGTGACAAATGTAGTGTTT
EST:
gi|7146449|gb|AW508371.1|AW508371EST: GAAAAGGGGG-TTTTCAAGGGATCTTCAGAGACATGAAATCATTGGACAG GTCTTGGGCATTGAGGAGGTCTTC
genomic: -AAAAGGGGGGTTTTCAAGGAATCTTCAGAGACATGAAATCATTGAACAGgtttgtgtca ... atgtgaacagGTCTTGGCCATTGAGGAGGTCTTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caagcttaactttgtttaccacaagacagggataaaattcatcttatgtgaacagGTCTTGGCCATTGAGGAGGTCTTCAAGAATAGGGTGACAAATGTAGTGTTTATGGGAATGGGTGAACCAATGTTAAACCTGAAGGCAGTACTTGAAGCAC
gcttaac putative branch site (score: 3)
ataaaattcatcttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctctggatcattctcattgtgtttaggattgtaaatgttctgaaacaagcttaactttgtttaccacaagacagggataaaattcatcttatgtgaacagGTCTTGGCCATTGAGGAGGTCTTCAAGAATAGGGTGACAAATGTAGTGTTTATGGGAATGGGTGAACCAATGTTAAACCTGAAGGCAGTACTTGAAGCAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
ctctgga
- - - - cattctc
- - - - - - - - - - - - - - - - - - - - -gaaacaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccacaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggataaaa