Sequence
atgc intronic sequence ATGC exonic sequencegtggttaccttaccttgtctaaagcaaatatgtgatagtagttgtatacggtgcataattgaacttggtgatgtagGTTCCTAATGCGACAAATAGTTTATGTGGATACAAAATTGTTACTGGCCAGCCATCTGATAGGCTTGGAGAGGACTTTTCAGAGCATTATAATGATTTTA
Basic information
species | Glycine max |
transcript | GLYMA13G24090.2 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G24090.1 (Glycine max), 3'ss of exon 12
lower sequence: LOC_Os02g20930.1 (Oryza sativa), 3'ss of exon 11
--------gtggttaccttaccttgtctaaagcaaatatgtgatagtagttgtatacggtgcataattgaacttg-gtgatgtagGTTCCTAATGCGACAAATAGTTTATGTGGATACAAAATTGTTACTGGCCAGCCATCTGATAGGCTTGGAGAGGACTTTTCAGAGCATTATAATGATTTTA
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gtttgatgacagaatgtttatcatctattatg-aaccatgtcttt-tcttcatggatggccttgtgctgaccaaatgaaatacagACACCAAACACCACAAACAGCCTATGTGGTTACAAGATTGTTACTGGACAACCATCGGATAGACTTGGAGAGGATTTCTCAGAACATTACAAAGACTTTA
upper sequence: GLYMA13G24090.1 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G059039_T01 (Zea mays), 3'ss of exon 11
------------------------gtggttacctt---accttgtctaaagcaaatatgtgatagtagttgtatacggtgcataattgaacttggtgatgtagGTTCCTAATGCGACAAATAGTTTATGTGGATACAAAATTGTTACTGGCCAGCCATCTGATAGGCTTGGAGAGGACTTTTCAGAGCATTATAATGATTTTA
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ggaatatacggagtaataagtagtatgattctctttgagacgagttgaagccagatttattttcattatc-taaaaagtgc-tgaccaaatctg-catttcagACTCCAAACACAACGAACAGTCTATGTGGTTACAAGATTGTTACTGGGCAACCATCAGATAGACTTGGAGAGGACTTCTCAGAGCATTACAAAGATTTCA
upper sequence: GLYMA13G24090.1 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G014577_T01 (Zea mays), 3'ss of exon 11
------------gtggttaccttaccttgtctaaagcaaatatgtgatagtag--ttgtatacggtgcataattga----------acttggtgatgtagGTTCCTAATGCGACAAATAGTTTATGTGGATACAAAATTGTTACTGGCCAGCCATCTGATAGGCTTGGAGAGGACTTTTCAGAGCATTATAATGATTTTA
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tggaatggagtaataagtagtctggttttcttggagacaaaagctgaagccagatttatttccattatctaaacgagtgctgacaaaatctgcatttcagACTCCAAACACAACGAACAGTCTATGTGGTTACAAGATTGTTACTGGGCAACCATCGGATAGACTTGGAGAGGACTTCACAGAGCATTACAAAGATTTTAMapped 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|5752670|gb|AI959957.1|AI959957EST: TTACCTATGTTGAGTGCTTGTTGTACACATTTCATCACTTAGCTCATAAG GTTCCTAATCCGACAAATAGTTTATGTGGATACAAAATTGTTACTGGCCAG
genomic: TTACCTATGTTGAGTGCTTGTTGTACACATTTCATCACTTAGCTCATAAGgtggttacct ... ggtgatgtagGTTCCTAATGCGACAAATAGTTTATGTGGATACAAAATTGTTACTGGCCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagcaaatatgtgatagtagttgtatacggtgcataattgaacttggtgatgtagGTTCCTAATGCGACAAATAGTTTATGTGGATACAAAATTGTTACTGGCCAGCCATCTGATAGGCTTGGAGAGGACTTTTCAGAGCATTATAATGATTTTA
gtctaaa putative branch site (score: 3)
ataattgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtggttaccttaccttgtctaaagcaaatatgtgatagtagttgtatacggtgcataattgaacttggtgatgtagGTTCCTAATGCGACAAATAGTTTATGTGGATACAAAATTGTTACTGGCCAGCCATCTGATAGGCTTGGAGAGGACTTTTCAGAGCATTATAATGATTTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA