Sequence
atgc intronic sequence ATGC exonic sequencegtttttaatgtgttcttaaaacatcattctatttcagtcttcaagataacctttttcccttttaccctgaactcaagatttgtttgtgattatatgtacagTATGCTGAAGATCTTGAAAGTGGTTTCGCGTCAGATGTTGAATCTAAATACAAGAAGATATATGAGGATGATATAAATCCTTTTGCTGCATTCTCAAAAA
Basic information
species | Glycine max |
transcript | GLYMA07G09890.2 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G09890.3 (Glycine max), 3'ss of exon 15
lower sequence: LOC_Os03g50300.1 (Oryza sativa), 3'ss of exon 14
gtttttaatgtgttcttaaaacatcattctatttcagtcttcaagataacctttttcccttttaccctgaactcaagatttgtttgtgattatatgtacagTATGCTGAAGATCTTGAAAGTGGTTTCGCGTCAGATGTTGAATCTAAATACAAGAAGATATATGAGGATGATATAAATCCTTTTGCTGCATTCTCAAAAA--
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-----------gtttataca-catcctttcaagggaaaat--agcaaaatccacagcattctagcttttgacctttgttacatt-gtgttt-----tgcagTATGCAGAAGATGTTGAAAGTGGTTCT---TCAGATGTTGAGACGAAGTACAAGAAAATGTATGAGGATGACATAAATCCTTTTGCTGCTTTTTCAAAGAAG
upper sequence: GLYMA07G09890.3 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G011219_T02 (Zea mays), 3'ss of exon 14
gtttttaatgtgttcttaaaacatcattctatttcagtcttcaagataacctttttcccttttaccctgaactcaagatttgtttgtgattatatgtacagTATGCTGAAGATCTTGAAAGTGGTTTCGCGTCAGATGTTGAATCTAAATACAAGAAGATATATGAGGATGATATAAATCCTTTTGCTGCATTCTCAAAAA--
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-----------gtttatcacaaatctttttatgtaaatttg----------tctctccgcattttcttgcatttgacctttgtt-gtg-ttat---tgcagTACGCAGAAGATATTGAAAGTGGTTCT---TCTGATGTTGAAGCAAAGTACAAGAAAATGTATGAGGATGACATAAACCCGTTTGCTGCTTTTTCAAAGAAG
upper sequence: GLYMA07G09890.3 (Glycine max), 3'ss of exon 15
lower sequence: AT3G18480.1 (Arabidopsis thaliana), 3'ss of exon 15
gtttttaatgtgttcttaaaacatcattctatttcagtcttcaagataacctttttcccttttaccctgaactcaagatttgtttgtgattatatgtacagTATGCTGAAGATCTTGAAAGTGGTTTCGCGTCAGATGTTGAATCTAAATACAAGAAGATATATGAGGATGATATAAATCCTTTTGCTGCATTCTCAAAAA
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-----gtatttgttttctgcgatacatttcccttgaaccttt-------tctgtctcgtgatcgggttttttccatggttgatatcgttttccaatctcagTATGTGGAAGATCTTGAAAGTGGATTCAGCTCGGATGTCGAATCAAAATACAAGAAAATTTACGAAGATGACATCAACCCTTTTGCAGCATTCTCGAAAA
upper sequence: GLYMA07G09890.3 (Glycine max), 3'ss of exon 15
lower sequence: Vv17s0000g03970.t01 (Vitis vinifera), 3'ss of exon 15
gtttttaatgtgttcttaaaacatcattctatttcagtcttcaagataacctttttcccttttaccctgaactcaagatttgtttgtgattatatgtacagTATGCTGAAGATCTTGAAAGTGGTTTCGCGTCAGATGTTGAATCTAAATACAAGAAGATATATGAGGATGATATAAATCCTTTTGCTGCATTCTCAAAAA
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-------gtatcttatcgcaattctatgcttattaaa---ttatggttgtcatttcctcttt---cttaaatttcatcttctttaat-----catgttcagCATTCAGAAGATCTTGAGAGTGGTTTCAGCTCAGATGTTGAATCCAAGTACAAGAAGATATATGAGGATGATATAAATCCCTTTGCTGCTTTCTCCAAAAMapped 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|193690259|gb|FK634556.1|FK634556EST: ATGTACAAGACTATAATCATGAGAAAGTGGTTTCTAGGGGTTCTAAAAAG TATGCTGAAGATCTTGAAAGTGGTTTCGCGTCAGATGTGGAATCTAAATAC
genomic: ATGTACAAGACTATAATCATGAGAAAGTGATTTCTAGGGGTTCTAAAAAGgtttttaatg ... atatgtacagTATGCTGAAGATCTTGAAAGTGGTTTCGCGTCAGATGTTGAATCTAAATAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taacctttttcccttttaccctgaactcaagatttgtttgtgattatatgtacagTATGCTGAAGATCTTGAAAGTGGTTTCGCGTCAGATGTTGAATCTAAATACAAGAAGATATATGAGGATGATATAAATCCTTTTGCTGCATTCTCAAAAA
agataac putative branch site (score: 3)
attatatgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttttaatgtgttcttaaaacatcattctatttcagtcttcaagataacctttttcccttttaccctgaactcaagatttgtttgtgattatatgtacagTATGCTGAAGATCTTGAAAGTGGTTTCGCGTCAGATGTTGAATCTAAATACAAGAAGATATATGAGGATGATATAAATCCTTTTGCTGCATTCTCAAAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC