Sequence
atgc intronic sequence ATGC exonic sequencegtttttctctcgtttccacaaattcttacggaatgtggtggtggattcttagatctttcactgtgttgggtgaaaccccttttgcttaatatttttgtgatttggttgttgcttagGCAGAGTACTTGAATCCTGACACGCTCTGGGACCGCCTCAATGATGCCGTTAACACAATCATACGGAGAGATGAGACAACCGAGACAGGAGGCCTCTTGC
Basic information
species | Glycine max |
transcript | GLYMA17G12140.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G12140.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv11s0016g05510.t01 (Vitis vinifera), 3'ss of exon 2
gtttttctctcgtttccacaaattcttacggaatgtggtggtggattcttagatctttcactgtgttgggtgaaaccccttttgcttaatatttttgtgatttggttgttgcttagGCAGAGTACTTGAATCCTGACACGCTCTGGGACCGCCTCAATGATGCCGTTAACACAATCATACGGAGAGATGAGACAACCGAGACAGGAGGCCTCTTGC
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----------cggtt--atagactcg---agggtattttcatacatgttcag-ttttttttttttttttgttttttttgtttttttttgttttgtaattttctttctattgctcagACTGAATATATGGATCTTGGAACTCTATGGGACCGGGTGAATGATGCCGTTAACACGATAATTCGGAGAGATGAGAGTACTGAAACAGGAGAGCTTTTGCMapped 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|10237540|gb|BE806428.1|BE806428EST: TGGTGGTTCTCAAGGCCGAAGAAATCATGTACTCCAAAGCCAATTCCGAG GCAGAGTACTTGAATCCTGACACGCTCTGGGACCGCCTCAATGATGCCGTT
genomic: TGGTGGTTCTCAAGGCCGAAGAAATCATGTACTCCAAAGCCAATTCCGAGgtttttctct ... tgttgcttagGCAGAGTACTTGAATCCTGACACGCTCTGGGACCGCCTCAATGATGCCGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtgttgggtgaaaccccttttgcttaatatttttgtgatttggttgttgcttagGCAGAGTACTTGAATCCTGACACGCTCTGGGACCGCCTCAATGATGCCGTTAACACAATCATACGGAGAGATGAGACAACCGAGACAGGAGGCCTCTTGC
gcttaat putative branch site (score: 4)
ttaatatttttgtgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttttctctcgtttccacaaattcttacggaatgtggtggtggattcttagatctttcactgtgttgggtgaaaccccttttgcttaatatttttgtgatttggttgttgcttagGCAGAGTACTTGAATCCTGACACGCTCTGGGACCGCCTCAATGATGCCGTTAACACAATCATACGGAGAGATGAGACAACCGAGACAGGAGGCCTCTTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG