Sequence
atgc intronic sequence ATGC exonic sequence...tgatccattgttttataccaaagagaaaacaaaaaaaaaaaaaaaagatccaatattggcacaacaagctaatcattagtcttatgaaattaaactctagGTACACAAGAGGAAGCAGCTGAAGCCTATGACATTGCTGCTATAAAATTCCGAGGAGCGAATGCTGTAACCAACTTTGACATAACAAGATATGATGTTGA
Basic information
species | Glycine max |
transcript | GLYMA17G17010.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G17010.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv07s0151g00440.t01 (Vitis vinifera), 3'ss of exon 7
tgatccattgttttataccaaagaga--aaacaaaaaaaaaaaaaaaagatccaatattggcacaacaagctaatcattagtcttatgaaattaa-actctagGTACACAAGAGGAAGCAGCTGAAGCCTATGACATTGCTGCTATAAAATTCCGAGGAGCGAATGCTGTAACCAACTTTGACATAACAAGATATGATGTTGA
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-tattcatatttagatcttatggaagtggagctatttccgttctcggtaaacttacat--atccaaaaagctacttctggttctcatactactggtatttcagGCACCCAAGAGGAAGCAGCTGAAGCCTATGACATTGCTGCAATAAAATTCCGTGGGGTAAATGCCGTAACCAACTTTGATATAACAAGGTACGATGTGGA
upper sequence: GLYMA17G17010.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S131_139V6.1 (Physcomitrella patens), 3'ss of exon 5
------------------------------------------------------------------------tgatccattgttttataccaa----agagaaaacaaaaaaaaaaaaaaaagatc-caatattggcacaa-----caagctaatcat-tagtcttatg---aaattaaact-------------ctagGTACACAAGAGGAAGCAGCTGAAGCCTATGACATTGCTGCTATAAAATTCCGAGGAGCGAATGCTGTAACCAACTTTGACATAACAAGATATGATGTTGA
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gtgagtgccggtttcacatgaatttgtaaacattagtggattaccctcgctgcaaatcctggtcgtttctcctgataggacttctgatatcgattccggagacatcagcatattctgggtctcgttgcaatgttgaaaggatttcgcagggtgcccatgttacctaatggttaaaatgaactggctttgtatgactcagGCACACAAGAGGAAGCAGCAGAGGCCTACGACATTGCCGCGATAAAATTCCGTGGAATCAATGCCGTCACAAACTTCGACATGTCTCGTTACAATGCTGCMapped 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|193388426|gb|FK356629.1|FK356629EST: TCGAATTGGTAGAGTGGCTGGAAACAAAGATCTATATCTTGGAACCTTCA GTACACAAGAGGAAGCAGCTGAAGCCTATGACATTGCTGCTATAAAATTCC
genomic: TCGAATTGGTAGAGTGGCTGGAAACAAAGATCTATATCTTGGAACCTTCAgtgagttctt ... taaactctagGTACACAAGAGGAAGCAGCTGAAGCCTATGACATTGCTGCTATAAAATTCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agatccaatattggcacaacaagctaatcattagtcttatgaaattaaactctagGTACACAAGAGGAAGCAGCTGAAGCCTATGACATTGCTGCTATAAAATTCCGAGGAGCGAATGCTGTAACCAACTTTGACATAACAAGATATGATGTTGA
agctaat putative branch site (score: 3)
tcttatgaaattaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgatccattgttttataccaaagagaaaacaaaaaaaaaaaaaaaagatccaatattggcacaacaagctaatcattagtcttatgaaattaaactctagGTACACAAGAGGAAGCAGCTGAAGCCTATGACATTGCTGCTATAAAATTCCGAGGAGCGAATGCTGTAACCAACTTTGACATAACAAGATATGATGTTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - -ccaaaga
- - - - - - - - - - - - -aaaacaa
- - - - - - - - - - - - - - - aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cacaaca