Sequence
atgc intronic sequence ATGC exonic sequencegtggtgttttccctttgatcctatgtgttattgctttgcattcttgtttcttattttatcctgtgtctttttgatatgcagGAATCGACTTCGTATGCTCACACAGTTCTTGGAACACCTTGTAAGTGAGGGAAGCCAGGATGTACATGTTCACAATGCACTGGGTAAAATTATCATTGAT
Basic information
species | Glycine max |
transcript | GLYMA14G06340.1 |
intron # | 22 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G06340.1 (Glycine max), 3'ss of exon 22
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 22
gtggtgttttccctttgatccta---tgtgtt-attgctttgcattcttgtttcttattttatcctgtgtctttttgatatg-cagGAATCGACTTCGTATGCTCACACAGTTCTTGGAACACCTTGTAAGTGAGGGAAGCCAGGATGTACATGTTCACAATGCACTGGGTAAAATTATCATTGAT
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gtga-atccttttggtcatcctggtttgcgttcataattatgtctgtttagttctggaaac-tctaatatgtttctgctttttcagAAATCGACTCCGTCTCCTCACTCAGTTCTTGGAGCATTTAGTTAGTGAGGGAAGCCAAGATGTGCATGTCCATAATGCCTTGGGTAAAATTATCATAGAC
upper sequence: GLYMA14G06340.1 (Glycine max), 3'ss of exon 22
lower sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 22
gtggtgttttccctttgatcctatgtgttattgctttgcat----tcttgtttcttattttatcctgtgtctttttgatatgcagGAATCGACTTCGTATGCTCACACAGTTCTTGGAACACCTTGTAAGTGAGGGAAGCCAGGATGTACATGTTCACAATGCACTGGGTAAAATTATCATTGAT
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gtgcgaacccttttagcatcttgaatttcgttcatatgtatgctattttgttctttaggctctaatatgtatatgtcttct-cagAAATCGACTCCGTCTCCTCACTCAGTTCTTGGAGCATCTAGTTAGTGAGGGAAGCCAAGATGTGCATGTCCATAATGCCTTGGGTAAAATTATCATAGAC
upper sequence: GLYMA14G06340.1 (Glycine max), 3'ss of exon 22
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 22
gtggtgttttccctttgatcctatgtgttatt--gctttgcattcttgtttcttattttatcctgtgtctt---tttgatatgcagGAATCGACTTCGTATGCTCACACAGTTCTTGGAACACCTTGTAAGTGAGGGAAGCCAGGATGTACATGTTCACAATGCACTGGGTAAAATTATCATTGAT
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gtgatgtgtccct----accatatgccctgttcgggttcactttctttttacttcaattg-cttatgctttgcatgtggttttcagAAATCGACTCCGTTTACTCACTCAGTTCTTGGAGCATCTTGTGAGTGAGGGAAGCCAAGATGTGCATGTCCATAATGCTCTGGGTAAAATCATTATAGACMapped 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|213590754|gb|DB979627.1|DB979627EST: GTTCGTTCATTACTGCCAGTGGAGCCCCTTGTGGAGGAATGTGAGAAGAG GAATCGACTTCGTATGCTCACACAGTTCTTGGAACACCTTGTAAGTGAGGG
genomic: GTTCGTTCATTACTGCCAGTGGAGCCCCTTGTGGAGGAATGTGAGAAGAGgtggtgtttt ... tgatatgcagGAATCGACTTCGTATGCTCACACAGTTCTTGGAACACCTTGTAAGTGAGGG
EST:
gi|208278427|gb|GE074440.1|GE074440EST: GTTCGTTCATTACTGCCAGTGGAGCCCCTTGTGGAGGAATGTGAGAAGAG GAATCGACTTCGTATGCTCACACAGTTCTTGGAACACCTTGTAAGT
genomic: GTTCGTTCATTACTGCCAGTGGAGCCCCTTGTGGAGGAATGTGAGAAGAGgtggtgtttt ... tgatatgcagGAATCGACTTCGTATGCTCACACAGTTCTTGGAACACCTTGTAAGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttattgctttgcattcttgtttcttattttatcctgtgtctttttgatatgcagGAATCGACTTCGTATGCTCACACAGTTCTTGGAACACCTTGTAAGTGAGGGAAGCCAGGATGTACATGTTCACAATGCACTGGGTAAAATTATCATTGAT
ttttgat putative branch site (score: 4)
tcctgtgtcttttt CT-rich tract
ttgtttcttattttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtggtgttttccctttgatcctatgtgttattgctttgcattcttgtttcttattttatcctgtgtctttttgatatgcagGAATCGACTTCGTATGCTCACACAGTTCTTGGAACACCTTGTAAGTGAGGGAAGCCAGGATGTACATGTTCACAATGCACTGGGTAAAATTATCATTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG