Sequence
atgc intronic sequence ATGC exonic sequence...atcattcacaaccccagtgataagctagaatttagagtttgatatatcgagtacaaaattaatattatttaattttaaatataaaattgtggttttatagGTGATCGCAGGGACCAGAAAATTCTTGAAAGTCTTAGAGCTGAAAGGAAGGCAAAAATTGATGAGCTCAAAGAGAAGACAAATTATTACATTACTCAACA
Basic information
species | Glycine max |
transcript | GLYMA14G17080.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G17080.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os02g41990.1 (Oryza sativa), 3'ss of exon 2
-atcattcacaacccca-gtgataagctaga--atttagagtttgatatatcgagtacaaaattaatattatttaattttaaatataaaattgtggttttatagGTGATCGCAGGGACCAGAAAATTCTTGAAAGTCTTAGAGCTGAAAGGAAGGCAAAAATTGATGAGCTCAAAGAGAAGACAAATTATTACATTACTCAACA
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agatatttactattttatatgtcaatttacatgatatagcatttaatctgtatgatgtgttagtatactctattcacttcctatttgtatctgt----tcacagTTGAGCGGAAAGACCAGAAGACACTTGAAAAGCTGAGAGCTGAGAGGAAGGCCAAGATTGATGAGCTAAAAGAGAGAACTAATTATTACCTCACCCAACA
upper sequence: GLYMA14G17080.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv00s0215g00090.t01 (Vitis vinifera), 3'ss of exon 3
atcattcacaaccccagtgataagctagaatttagagtttgat--atatcgagtacaaaattaatat--tatttaattttaaatataaaattgtggttttatagGTGATCGCAGGGACCAGAAAATTCTTGAAAGTCTTAGAGCTGAAAGGAAGGCAAAAATTGATGAGCTCAAAGAGAAGACAAATTATTACATTACTCAACA
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--agtttgatatctca--aactttcaagaatttggtatactatttgtgttctggtcaaaattagtacagcaatgaattctaatgtaatgaacatgattgtatagGTGACCGCAAGGACCAGAAAACTCTGGAAAGGCTTCGGGCTGAAAGGCAAGCAAAGATTGATGAGCTTAAGGAAAAGACAAATTACTATATTACTCAACA
upper sequence: GLYMA14G17080.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv02s0033g01150.t01 (Vitis vinifera), 3'ss of exon 4
atcattcacaacccca-gtgataagct----agaatttagagtttgatatatcgagtacaaaattaatattatttaattttaaatataaaattgtggttttatagGTGATCGCAGGGACCAGAAAATTCTTGAAAGTCTTAGAGCTGAAAGGAAGGCAAAAATTGATGAGCTCAAAGAGAAGACAAATTATTACATTACTCAACA
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---ttttagagtttgatatgtcaaactgttgacaatctactatgtg-tgctctggtcatatttggcgtatcatggaactgaaattttttcac-atgattgtacagGTGACCGCAGGGATCAGAAAACTCTAGAGCGCCTTCGAGCCGAAAGACGAGCAAAAATTGATGAACTCAAAGAGAGGACAAATTATTATACCACACAACAMapped 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|193522915|gb|FK480464.1|FK480464EST: TGCCTTGTCATCAGCTACATATACTGCATTTGTCAGCTTCACCAGGATGT GTGATCGCAGGGACCAGGAAATTCTTGAAAGTCTTAGAGCTGAAAGGAAGG
genomic: TGCCTTGTCATCAGCTACATATACTGCATTTGTCAGCTTCACCAGGATGTgtaagtgtcc ... ggttttatagGTGATCGCAGGGACCAGAAAATTCTTGAAAGTCTTAGAGCTGAAAGGAAGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atcgagtacaaaattaatattatttaattttaaatataaaattgtggttttatagGTGATCGCAGGGACCAGAAAATTCTTGAAAGTCTTAGAGCTGAAAGGAAGGCAAAAATTGATGAGCTCAAAGAGAAGACAAATTATTACATTACTCAACA
tacaaaattaatatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atcattcacaaccccagtgataagctagaatttagagtttgatatatcgagtacaaaattaatattatttaattttaaatataaaattgtggttttatagGTGATCGCAGGGACCAGAAAATTCTTGAAAGTCTTAGAGCTGAAAGGAAGGCAAAAATTGATGAGCTCAAAGAGAAGACAAATTATTACATTACTCAACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
-tcattca
- - - - caacccc
- - - - - - - - - - - - - - - - - gagtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - aaaattaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaatataa