Sequence
atgc intronic sequence ATGC exonic sequenceTCCTGATGAGTGTGCTTGGGCTTATGGGATGAATTTATTTGATCTGCGTACGTGGAGAACAACAAACATAAGAGAGACATATCATACCTGGCTGAAAGAGgtaaagtcatatatactcaaactaatacaatccattaatttgaatttctagcaaattctgaattttaaattaatgctgtcgtactgattcaaatatctac...
Basic information
species | Glycine max |
transcript | GLYMA19G03460.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G03460.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G107854_T01 (Zea mays), 5'ss of exon 5
TCCTGATGAGTGTGCTTGGGCTTATGGGATGAATTTATTTGATCTGCGTACGTGGAGAACAACAAACATAAGAGAGACATATCATACCTGGCTGAAAGAGgtaaagtcatatatactcaaactaatacaatcca--ttaatttgaatttctagcaaattctga--attttaaattaatgctgtcgtactgattcaaatatctac
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CCCAGATGAATGTGCTTGGGCATATGGTATGAATATATTTGATCTGGCAGTTTGGAGGAAGACAAACATCAGGGATACATACCATTTCTGGTTGAAGGAGgtaatgcattttacacccacatatccatttcccagtcttactcgatgttccattgttcgttgactatgtttgtgaactgaaatcgttctggt----atttttgc
upper sequence: GLYMA19G03460.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G113506_T01 (Zea mays), 5'ss of exon 5
TCCTGATGAGTGTGCTTGGGCTTATGGGATGAATTTATTTGATCTGCGTACGTGGAGAACAACAAACATAAGAGAGACATATCATACCTGGCTGAAAGAGgtaaagtcatatatactcaaactaatacaatcca-----ttaatttgaatttc-tagcaaatt--ctgaattttaaattaatgctgtcgtactgattcaaatatctac
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CCCAGATGAATGTGCTTGGGCATATGGTATGAATATATTTGATCTGGCAGCTTGGAGGAAGACAAATATCAGGGATACATATCATTTCTGGTTGAAGGAGgtaatgcatttcaccaacaaggatatacatttcccagtcttactctatgttccatagttcgttgactatgttttgaactgaaatctttctggtattttgg--------
upper sequence: GLYMA19G03460.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G113506_T02 (Zea mays), 5'ss of exon 5
TCCTGATGAGTGTGCTTGGGCTTATGGGATGAATTTATTTGATCTGCGTACGTGGAGAACAACAAACATAAGAGAGACATATCATACCTGGCTGAAAGAGgtaaagtcatatatactcaaactaatacaatcca-----ttaatttgaatttc-tagcaaatt--ctgaattttaaattaatgctgtcgtactgattcaaatatctac
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CCCAGATGAATGTGCTTGGGCATATGGTATGAATATATTTGATCTGGCAGCTTGGAGGAAGACAAATATCAGGGATACATATCATTTCTGGTTGAAGGAGgtaatgcatttcaccaacaaggatatacatttcccagtcttactctatgttccatagttcgttgactatgttttgaactgaaatctttctggt-attttggcatgcag
upper sequence: GLYMA19G03460.1 (Glycine max), 5'ss of exon 5
lower sequence: AT3G01040.2 (Arabidopsis thaliana), 5'ss of exon 5
TCCTGATGAGTGTGCTTGGGCTTATGGGATGAATTTATTTGATCTGCGTACGTGGAGAACAACAAACATAAGAGAGACATATCATACCTGGCTGAAAGAGgtaaagt--catatatactcaaactaatacaatccattaatttgaatttctagcaaattctgaattttaaattaatgctgtcgtactgattcaaatatctac
||| || || ||||||||||||||||| |||||| | |||||||| || || ||||| | ||||| || ||||| || |||||| | ||||| ||||||||||||| || | | | | | | | | ||| ||| | | ||||||| | || | ||| || | | | |||| |
TCCCGAAGAATGTGCTTGGGCTTATGGAATGAATATCTTTGATCTACGGACTTGGAGGAAGACAAATATCAGAGAAACGTATCATTCTTGGCTTAAAGAGgtaaagtatcagagaagcctgtaatgttttgagttttagattcgaaat--tggcaaattattgatcatgc-ttactggttttgctttgatgtgcag------
upper sequence: GLYMA19G03460.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv14s0108g01520.t01 (Vitis vinifera), 5'ss of exon 5
TCCTGATGAGTGTGCTTGGGCTTATGGGATGAATTTATTTGATCTGCGTACGTGGAGAACAACAAACATAAGAGAGACATATCATACCTGGCTGAAAGAGgtaaagtcatatatactcaaactaatacaatccattaatttga--atttctagcaaattctgaattttaaattaatgctgtc-gtactgattcaaatatctac
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TCCTGATGAATGTGCATGGGCTTATGGGATGAACATCTTTGATCTAAGTGCATGGAGGAAGACCAATATAAGAGAAACTTACCATTCCTGGCTGAAGGAGgtaagaac-taagcact-acatttgttttacacacttatgtgatagttttccttagtttcttcattgcttcaaactgcagtgagcttcaagttcaataggta-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|22525784|gb|BU084595.1|BU084595EST: CGTGGAGAACAACAAACATAAGAGAGACATATCATACCTGGCTGAAAGAG AATCTAAGGTCGAACCTGACGATGTGGAAGCTTGGAACCCTACCCCCTGCT
genomic: CGTGGAGAACAACAAACATAAGAGAGACATATCATACCTGGCTGAAAGAGgtaaagtcat ... tgtatgacagAATCTAAGGTCGAACCTGACGATGTGGAAGCTTGGAACCCTACCCCCTGCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCCTGATGAGTGTGCTTGGGCTTATGGGATGAATTTATTTGATCTGCGTACGTGGAGAACAACAAACATAAGAGAGACATATCATACCTGGCTGAAAGAGgtaaagtcatatatactcaaactaatacaatccattaatttgaatttctagcaaattctgaattttaaattaatgctgtcgtactgattcaaatatctac
- - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA