Sequence
atgc intronic sequence ATGC exonic sequencegttagtgacatatacacccaatattaattaacatgacatattattcatacaaatgtgattattcatacaaatgtgattatattaagtttaagaatgtctgtggtgtgtctttcagACCAACAGTGATTTTGATGCTAAACCAATGGTCATGCTCCTTGGTCAATATTCCACTGGGAAAACAACCTTTATAAAACATTTACTAAGATGTGATTATC
Basic information
species | Glycine max |
transcript | GLYMA17G01310.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G01310.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os04g57350.1 (Oryza sativa), 3'ss of exon 8
gttagtgacatatacacccaatattaattaacatgacatattattcatacaaatgtgattattcatacaaatgtgattatattaagtttaagaatgtctgtggtgtgtctttcagACCAACAGTGATTTTGATGCTAAACCAATGGTCATGCTCCTTGGTCAATATTCCACTGGGAAAACAACCTTTATAAAACATTTACTAAGATGTGATTATC
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-----tgaagaaaaagtttggaactaa---acaaggcct-ctattcctctcagttgg------catgcatgacttcctaatggagctttctacgtcatgtttttccattttgtagACTAGCAGTGATTTCGATGCGAAGCCAATGGTCATGTTGCTGGGTCAGTATTCCACAGGAAAAACCACATTCATAAAGCATTTACTGAAGACAAATTATC
upper sequence: GLYMA17G01310.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G065012_T03 (Zea mays), 3'ss of exon 8
gttagtgacatatacacccaatattaattaaca---tgacatattattcatacaaatgtgattattcatacaaatgtgattatattaagtt--taagaatgtctgtggtgtgtcttt-----cagACCAACAGTGATTTTGATGCTAAACCAATGGTCATGCTCCTTGGTCAATATTCCACTGGGAAAACAACCTTTATAAAACATTTACTAAGATGTGATTATC
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----gtaattttcactcctttgttttatctgcagtttaatttgttctaca-acaaaggtaaatctgttgtaaagtgttgtgtcgctcctttgctggtaatttctgcccccctccccttcaaacagACTAGCAGCGATTTCGATGCGAAGCCAATGGTCATGCTGTTGGGTCAATACTCCACGGGGAAAACAACATTCATAAAGCATTTACTAAAAACAAGTTATC
upper sequence: GLYMA17G01310.1 (Glycine max), 3'ss of exon 8
lower sequence: AT4G05520.1 (Arabidopsis thaliana), 3'ss of exon 8
------------gttagtga--catatacacccaatattaattaac-atgacatattattcatacaaatgtgatta-ttcatacaaatgtgattat----attaagtttaagaatgtctgtggtgtgt--ctttcagACCAACAGTGATTTTGATGCTAAACCAATGGTCATGCTCCTTGGTCAATATTCCACTGGGAAAACAACCTTTATAAAACATTTACTAAGATGTGATTATC
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gtgagtaatatccttactgtttcagaaacacttgtgagtttttgtttattccgttttttcggtgaagagctaaagaactcatatctatatcaccatggaaaatgattctcagtttattgatactttatgatttgcagACTAGTAGCGATTTTGATGCCAAACCAATGGTAATGCTTTTGGGTCAATATTCCACCGGAAAAACAACATTTATAAAACACTTGCTCGGATGTGACTACC
upper sequence: GLYMA17G01310.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv00s0516g00020.t01 (Vitis vinifera), 3'ss of exon 9
-----------------------------------------------------------------------------gttagtgacatatacacccaatatta-attaacatg-acatattattcatacaaatgt--gattattcatacaaatgtgattatattaagtttaagaatgtctgtggtgtgtcttt---cagACCAACAGTGATTTTGATGCTAAACCAATGGTCATGCTCCTTGGTCAATATTCCACTGGGAAAACAACCTTTATAAAACATTTACTAAGATGTGATTATC
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gtaagtggactgagtattttagtttgtttatgatgagatgcctaaatttgttaatgatgagatgtctctcccttttcctatgtaacacatgttctaaaaaatgtgatattatgtatgctctgttctcgtagatttctgactctagctccagaagttctatttgagagtatggaaatattttttattttttcttttgcagACACATAGTGACTTTGATGCCAAACCCATGGTTATGCTTTTGGGTCAGTATTCAACTGGGAAAACTACATTCATAAAACATTTACTCGGATGTAATTTCCMapped 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|208147059|gb|GD949304.1|GD949304EST: AGCCATTGGAGGTCACCTATCGATTCAATGATTTTGTATCTCCATTATTG ACCAACAGTGATCTTGATGCTAAAACCAATGGTCATGCTCCTTGGTCAATA
genomic: AGCCATTGGAGGTCACCTATCGATTCAATGATTTTGTATCTCCATTATTGgttagtgaca ... tgtctttcagACCAACAGTGATTTTGATGCTAAA-CCAATGGTCATGCTCCTTGGTCAATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attcatacaaatgtgattatattaagtttaagaatgtctgtggtgtgtctttcagACCAACAGTGATTTTGATGCTAAACCAATGGTCATGCTCCTTGGTCAATATTCCACTGGGAAAACAACCTTTATAAAACATTTACTAAGATGTGATTATC
tgtctttc CT-rich tract
aaatgtgattatatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtgacatatacacccaatattaattaacatgacatattattcatacaaatgtgattattcatacaaatgtgattatattaagtttaagaatgtctgtggtgtgtctttcagACCAACAGTGATTTTGATGCTAAACCAATGGTCATGCTCCTTGGTCAATATTCCACTGGGAAAACAACCTTTATAAAACATTTACTAAGATGTGATTATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG