Sequence
atgc intronic sequence ATGC exonic sequence...acattattttattgactatacttgattgatgctttgcatttcatttgatggttagagaacatggatgtgttccctaacttttgtatctattttattctagGTGCTTGGCTGGGCACAAGCAATGCCCAAGTTCTCTAATGATCTGGTGAAGTATGTGCAAACTTTTCTGGAGAGGACTTATGAAAGATGCCGAACTGCAT
Basic information
species | Glycine max |
transcript | GLYMA10G35190.2 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G35190.1 (Glycine max), 3'ss of exon 18
lower sequence: AT3G10380.1 (Arabidopsis thaliana), 3'ss of exon 17
-------------------------------------------------------------------------acattattttattgactatacttgattgatgctttg---catttc-atttgat--ggttagagaacatggatgtgttccctaacttttgtatctattttattcta--gGTGCTTGGCTGGGCACAAGCAATGCCCAAGTTCTCTAATGATCTGGTGAAGTATGTGCAAACTTTTCTGGAGAGGACTTATGAAAGATGCCGAACTGCAT
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gcaagtcgtctatgctttaaaactgcaagataaaagtttttatttttcataattttcatcttcctaaaagaatggattagttgagtggttacttccagttcatcatttaatccatttttgttttctcaagtttcaagatatttgtgttttgatgaaactacttgctcttcaaattttatagGTTCTTGGCTGGGCTCAAGCCATGCCTAAATTTGCTACTGATCTTGTGAAGTATGTTCAGACATTTCTTGAGAGGACATTTGAGAGATGTCGAACATCAT
upper sequence: GLYMA10G35190.1 (Glycine max), 3'ss of exon 18
lower sequence: Vv13s0019g04770.t01 (Vitis vinifera), 3'ss of exon 15
--------------------------------------------------------------------------------------------------acattattttattgactatacttgattgatgctttgcatttcatttgatggttagagaacatggatgtgttccctaactt-ttgtatctattttattctagGTGCTTGGCTGGGCACAAGCAATGCCCAAGTTCTCTAATGATCTGGTGAAGTATGTGCAAACTTTTCTGGAGAGGACTTATGAAAGATGCCGAACTGCAT
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gtaaagtgaaatttttgtcttccctattttgaaggggggtaattttcctaatatgatcaatttaatgaaaatgtggattgacatgtttatacagtgaagtttcacttcttttgctctgctctgtaaataaatag--tttctcttatcagttatttttacagtaagcctacataaatttactgaatgtattttactctagGTGCTTGGTTGGGCTCAAGCAATGCCTAAATTTGCTGGTGACCTTGTGAAGTATGTGCAGACTTTCCTTGAACGAACCTATGAAAGATGTCGGACATCCT
upper sequence: GLYMA10G35190.1 (Glycine max), 3'ss of exon 18
lower sequence: PP1S70_67V6.1 (Physcomitrella patens), 3'ss of exon 17
----acattattttattgactatacttgat-tgatgctttgcatttcatttgatggttagagaacatggatgtgttccctaacttttgtatctattttattctagGTGCTTGGCTGGGCACAAGCAATGCCCAAGTTCTCTAATGATCTGGTGAAGTATGTGCAAACTTTTCTGGAGAGGACTTATGAAAGATGCCGAACTGCAT
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ccggagacatttgcactaatt---cccgatacaatgatttgaagtac-taaaatcgagagaaagtattaa-atggtggtgagttgttattccgagatcgcatcagGTGCTTGGATGGGCCCAAGCAATGCCCAAGTATGCTGGTGAAATACTGGAACTTGTCCAGACTCTTCTCGACCGTACCCTTGAACGCTGCCGTGCTGTGTMapped 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|254340254|gb|GR858379.1|GR858379EST: GTCGACCTGTTTTACAAGGATTATTAGCTATAGATCACTTAACAAAGGAG GTGCTTGGCTGGGCACAAGCAATGCCCAAGTTCTCTAATGATCTGGTGAAG
genomic: GTCGACCTGTTTTACAAGGATTATTAGCTATAGATCACTTAACAAAGGAGgtaaatttta ... tttattctagGTGCTTGGCTGGGCACAAGCAATGCCCAAGTTCTCTAATGATCTGGTGAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgatggttagagaacatggatgtgttccctaacttttgtatctattttattctagGTGCTTGGCTGGGCACAAGCAATGCCCAAGTTCTCTAATGATCTGGTGAAGTATGTGCAAACTTTTCTGGAGAGGACTTATGAAAGATGCCGAACTGCAT
ccctaac putative branch site (score: 2)
ttttattct putative PPT
taacttttgtatctat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acattattttattgactatacttgattgatgctttgcatttcatttgatggttagagaacatggatgtgttccctaacttttgtatctattttattctagGTGCTTGGCTGGGCACAAGCAATGCCCAAGTTCTCTAATGATCTGGTGAAGTATGTGCAAACTTTTCTGGAGAGGACTTATGAAAGATGCCGAACTGCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - tgatgct
- - - - - - - - - - - - - - - - - -gcatttc
- - - - - - - - - - - - - - - - - - - - - - - gatggtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catggat