Sequence
atgc intronic sequence ATGC exonic sequence...ttataaccttggttaatgtctatttgcacatgcacaaaaatgaggactactagtattattattattatgtttttaattgaatgtggttatggtggtgtagGTAAGGCAGCGTTTGGAGAGAAGGAGTGGTACTTCTTCAGTCCAAGAGACAGGAAGTACCCGAATGGTTCACGACCAAACAGAGTTGCGGGTTCTGGGTA
Basic information
species | Glycine max |
transcript | GLYMA12G22880.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G22880.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv19s0014g03290.t01 (Vitis vinifera), 3'ss of exon 1
ttataaccttggttaatgtctatttgcacatgcacaaaaatgaggactactagtattattattattatgtttttaattgaatgtggtta-tggtggtgtagGTAAGGCAGCGTTTGGAGAGAAGGAGTGGTACTTCTTCAGTCCAAGAGACAGGAAGTACCCGAATGGTTCACGACCAAACAGAGTTGCGGGTTCTGGGTA
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---------------------gtgagtattgattcgaaaacctgcgttttctgcttcaatttggatttgtttctgatc--atttatttacttgttctgcagGTAAAGCTATATTTGGAGAGAAAGAGTGGTACTTTTTCAGTCCCAGAGATCGGAAGTACCCAAATGGGTCCAGACCCAATAGGGTTGCTGGGTCTGGGTAMapped 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|37994475|gb|CF806221.1|CF806221EST: AATCATTGCTGAAGTTGATTTGTACAAGTTTGATCCATGGGTTCTTCCAG GTAAGGCAGCGTTTGGAGAGAAGGAGTGGTACTTCTTCAGTCCAAGAGACA
genomic: AATCATTGCTGAAGTTGATTTGTACAAGTTTGATCCATGGGTTCTTCCAGgtaatttatt ... ggtggtgtagGTAAGGCAGCGTTTGGAGAGAAGGAGTGGTACTTCTTCAGTCCAAGAGACA
EST:
gi|14999391|gb|BI320350.1|BI320350EST: AATCATTGCTGAAGTTGATTTGTACAAGTTTGATCCATGGGTTCTTCCAG GTAAGGCAGCGTTTGGAGAGAAGGAGTGGTACTTCTTCAGTCCAAGAGACA
genomic: AATCATTGCTGAAGTTGATTTGTACAAGTTTGATCCATGGGTTCTTCCAGgtaatttatt ... ggtggtgtagGTAAGGCAGCGTTTGGAGAGAAGGAGTGGTACTTCTTCAGTCCAAGAGACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actactagtattattattattatgtttttaattgaatgtggttatggtggtgtagGTAAGGCAGCGTTTGGAGAGAAGGAGTGGTACTTCTTCAGTCCAAGAGACAGGAAGTACCCGAATGGTTCACGACCAAACAGAGTTGCGGGTTCTGGGTA
ttttaat putative branch site (score: 3)
tattattattattatg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttataaccttggttaatgtctatttgcacatgcacaaaaatgaggactactagtattattattattatgtttttaattgaatgtggttatggtggtgtagGTAAGGCAGCGTTTGGAGAGAAGGAGTGGTACTTCTTCAGTCCAAGAGACAGGAAGTACCCGAATGGTTCACGACCAAACAGAGTTGCGGGTTCTGGGTA
- - - - - - - - - - - - - - catgcac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaatgtg