Sequence
atgc intronic sequence ATGC exonic sequence...tgaagcagaatttttctgaagcctgttatatgcatgaatttatgtatttttttaatagctggtagactctaataaacaatacccttggcatttgatgcagATTTGAGGAACAGGAAGCCCCAGGGTCCAGATCATTTTTCACAGAGATTATTGCTTCTATCTCAGACATAAAATTTGGGAAGGATGGAAGATACATACTA
Basic information
species | Glycine max |
transcript | GLYMA15G02640.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G142334_T02 (Zea mays), 3'ss of exon 8
-------------------tgaagcagaatttttctgaagcctgttatatgcatgaatttatgtatttttttaatagctggtagactctaataaacaatacccttggcatttga-----tgcagATTTGAGGAACAGGAAGCCCCAGGGTCCAGATCATTTTTCACAGAGATTATTGCTTCTATCTCAGACATAAAATTTGGGAAGGATGGAAGATACATACTA
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gtgagcttttatttcacactaacatatactctacttggagaatatcaagtgaatac-----tgcccttctcaattatcctataagtttcgttgtactatttctatacctgttgtcttcttgtagCTTTGAGCAGCATGAGGCCCCAGGTTCAAGATCATTTTTCACTGAGATTATAGCTTCAATTTCGGACATAAAATTTTCGAAGGATGGGAGGCATATTCTC
upper sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G164185_T02 (Zea mays), 3'ss of exon 8
---------------------------------------tgaagcagaatttttctgaagcctgttatatgcat---gaatttatgtatttttttaatagctggtagactctaataaacaatacccttggcatttgatgcagATTTGAGGAACAGGAAGCCCCAGGGTCCAGATCATTTTTCACAGAGATTATTGCTTCTATCTCAGACATAAAATTTGGGAAGGATGGAAGATACATACTA
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gtgagcttttagtttacactttttatttcctacaatatgttcagtatactctacttggagaatattgggtggatactgaccttatcaattatcctaaaagtttccttgtatttttatacc-tgttcatgtcttct--tgtagCTTTGAGCAGCATGAGGCCCCAGGCTCAAGATCATTTTTCACTGAGATTATAGCCTCAATTTCGGACATAAAGTTTTCGAAGGATGGGAGGCATCTTCTC
upper sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G17720.2 (Arabidopsis thaliana), 3'ss of exon 8
--------------------------------------------------------------------------------------tgaagcagaatttttctgaagcctgttatatgcatgaatttatgtatttttttaatagctggtagactctaataaacaat-acccttggcatttgatgcagATTTGAGGAACAGGAAGCCCCAGGGTCCAGATCATTTTTCACAGAGATTATTGCTTCTATCTCAGACATAAAATTTGGGAAGGATGGAAGATACATACTA
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gtaagttctgttctcatcatcctttatcggaaatggtagttgcatgtttcaatatatacttaagaaggggatatgaatacgtgggttcatttccaatttttctcttttct-tgtcagaaatgacttggaaatgaagattaataggctaaagtttctgaccactgaccattgttgcttcatatcacagATTTGAAGAACCGGAAGCACCTGGTTCAAGATCATTTTTCACAGAGATAATTGCCTCAATTTCAGATATTAAATTCTCAAAGGATGGGAGATACATACTT
upper sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 8
--------tgaagcagaatttttctgaagcctgttatatgcatgaatttatgtatttttttaatagctggtagactctaataaacaatacccttggcatttgatgcagATTTGAGGAACAGGAAGCCCCAGGGTCCAGATCATTTTTCACAGAGATTATTGCTTCTATCTCAGACATAAAATTTGGGAAGGATGGAAGATACATACTA
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tgcattgatcagggaaaaagaaaaaaaaaatcattttgaaggtaaacgtttttatttagt-gctctttcctggatc--agtcagtgatagtacttgcat-----gcagGTTTGAGGAACAAGAGGCACCTGGTTCAAGATCATTTTTCACAGAGATAATTGCCTCAATTTCAGACATTAAATTTTCCAAGGATGGAAGATTTATACTCMapped 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|11274020|gb|BF324388.1|BF324388EST: CGTCTTGTTGACTTGCGACAATCAGCATTATGTGATTCTCATGCTAAACT ATTTGAGGAACAGGAAGCCCCAGGGTCCAGATCATTTTTCACAGAGATTAT
genomic: CGTCTTGTTGACTTGCGACAATCAGCATTATGTGATTCTCATGCTAAACTgtaagtacat ... tttgatgcagATTTGAGGAACAGGAAGCCCCAGGGTCCAGATCATTTTTCACAGAGATTAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttttttaatagctggtagactctaataaacaatacccttggcatttgatgcagATTTGAGGAACAGGAAGCCCCAGGGTCCAGATCATTTTTCACAGAGATTATTGCTTCTATCTCAGACATAAAATTTGGGAAGGATGGAAGATACATACTA
tctaataaacaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgaagcagaatttttctgaagcctgttatatgcatgaatttatgtatttttttaatagctggtagactctaataaacaatacccttggcatttgatgcagATTTGAGGAACAGGAAGCCCCAGGGTCCAGATCATTTTTCACAGAGATTATTGCTTCTATCTCAGACATAAAATTTGGGAAGGATGGAAGATACATACTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - -agcctgt
- - - - - - - - - - - - - - - -gcatgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -gctggta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acccttg