Sequence
atgc intronic sequence ATGC exonic sequence...aatttcttctttgtatatagtttgttctaaatgagttatcttggtactgcattgtttttcatttattttatttaagcttaaaatcttagtttattggcagGCTACTATTGTTGGACCTGGAAATGAATTGGGAAAACCTGTTGATATTAACAATGCTGAAGATCACATCTTTGGACTTGTTGTAATGAACGATTGGAGTG
Basic information
species | Glycine max |
transcript | GLYMA15G12100.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G12100.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os02g10310.3 (Oryza sativa), 3'ss of exon 5
----------------------------------------------------------------------------------------------aatttcttctttgtatatagtttgttctaaatgagttatcttggtactgcattgtttttcatttattttatttaagcttaaaatc--ttagtttattg---gcagGCTACTATTGTTGGACCTGGAAATGAATTGGGAAAACCTGTTGATATTAACAATGCTGAAGATCACATCTTTGGACTTGTTGTAATGAACGATTGGAGTG
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gttagtttcttacaaacctcttgactcacagtatttggtattcttgaactgttattgacatacctgttgcatgtttgttaaatttgagctgttggttgtcattgtggtataaaatctggccgtatgtaattagttatagatattttcatttcccctggatcaaatatatcataacgctttgttggcttgttgctttcagGCAGCCATTGTTGGACCAGGGAATGAATTGGGAAAACCTATCGATATTAATGATGCTGAAGAACATATCTTTGGCCTAATGATAATGAATGATTGGAGTG
upper sequence: GLYMA15G12100.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv00s0187g00300.t01 (Vitis vinifera), 3'ss of exon 3
--------------------------------------------------------------aatttcttctttgtatatagtttgttctaaatg----agttatcttggtactgcattgtttttcatttattttatttaa-gcttaaaatcttagtttattgg---cagGCTACTATTGTTGGACCTGGAAATGAATTGGGAAAACCTGTTGATATTAACAATGCTGAAGATCACATCTTTGGACTTGTTGTAATGAACGATTGGAGTG
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gttagttgatatgcatttttatcctatttaagaattttaaactcatgattaattttagtatcaaattttgtcttatgatgaatttatcgttattgcaccagttgtcttgttgtgatatgtgttgtctctgattctatttgttaattatatggcttatttattgcacccagGCTGCTATAGTTGGTCCTGGTAATGAATTAGGAAAGCCTGTGGATGTTAATGAGGCTGCAGATCACATCTTTGGACTTGTGATCATGAATGACTGGAGTG
upper sequence: GLYMA15G12100.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv00s0187g00340.t01 (Vitis vinifera), 3'ss of exon 6
---------------------------------------------------------------aatttcttctttgtatatagtt--tgtt-ctaaatgagttatcttggtactgcattgtttttcatttattttatttaa-gcttaaaatcttagtttattgg---cagGCTACTATTGTTGGACCTGGAAATGAATTGGGAAAACCTGTTGATATTAACAATGCTGAAGATCACATCTTTGGACTTGTTGTAATGAACGATTGGAGTG
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gttagttgatatgcatttttatcctatttaagaattttaaactcatgattaattttagtatcaaattttgtcttatgatgaatttatcgttactgcaccagttgtcttgtcgtgatatgtgttgtctctgattctatttgttaattatatggcttatttattgcacccagGCTGCTATAGTTGGTCCTGGTAATGAATTAGGAAAGCCTGTGGATGTTAATGAGGCTGCAGATCATATCTTTGGACTTGTGATCATGAATGACTGGAGTGMapped 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|193481845|gb|FK446964.1|FK446964EST: CTACTCCCTACTTTGGCCCTTCATTAAAGCTAGACTTTGAGTTGGAAATG GCTACTATTGTTGGACCTGGAAATGAATTGGGAAAACCTGTTGATATTAAC
genomic: CTACTCCCTACTTTGGCCCTTCATTAAAGCTAGACTTTGAGTTGGAAATGgttagcttgt ... ttattggcagGCTACTATTGTTGGACCTGGAAATGAATTGGGAAAACCTGTTGATATTAAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actgcattgtttttcatttattttatttaagcttaaaatcttagtttattggcagGCTACTATTGTTGGACCTGGAAATGAATTGGGAAAACCTGTTGATATTAACAATGCTGAAGATCACATCTTTGGACTTGTTGTAATGAACGATTGGAGTG
tttttcatttatttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatttcttctttgtatatagtttgttctaaatgagttatcttggtactgcattgtttttcatttattttatttaagcttaaaatcttagtttattggcagGCTACTATTGTTGGACCTGGAAATGAATTGGGAAAACCTGTTGATATTAACAATGCTGAAGATCACATCTTTGGACTTGTTGTAATGAACGATTGGAGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - tactgca