Sequence
atgc intronic sequence ATGC exonic sequencegtatgtggttactgaaataaggttttgagaagctttttttgtttttttggattacttattgacatgtagtgtttttattagGAGTATAATGCGAAGCTTTCAGATTTTGGTCTAGCAAAAGCAGGGCCTCAAGGAGACAAAACACATGTTTCTACCAGGGTAGTTGGAACTTATGGTTATG
Basic information
species | Glycine max |
transcript | GLYMA17G12060.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G12060.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os06g07230.1 (Oryza sativa), 3'ss of exon 4
------------------------gtat-gtggttactgaaata----aggttttgagaagctttttttgtttttttggattacttattgacatgtagtgtttttat-tagGAGTATAATGCGAAGCTTTCAGATTTTGGTCTAGCAAAAGCAGGGCCTCAAGGAGACAAAACACATGTTTCTACCAGGGTAGTTGGAACTTATGGTTATG
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gtactatttcttatcaattcattcacatcatgctcataaatatgttgcacattttcacaagattatttcttgcatgctattctaacagcagtggaaattctgcttatacagGAGTACAATGCAAAACTTTCAGATTTTGGGTTAGCGAAAGCTGGTCCTCAAGGCGATAAAACTCATGTCTCTACACGGGTTGTCGGTACCTATGGTTATG
upper sequence: GLYMA17G12060.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv11s0016g05720.t01 (Vitis vinifera), 3'ss of exon 4
gtatgtggttactgaaataaggttttgagaagctttttttgtttttttggattactt-attgacatgtagtgtttttat-tagGAGTATAATGCGAAGCTTTCAGATTTTGGTCTAGCAAAAGCAGGGCCTCAAGGAGACAAAACACATGTTTCTACCAGGGTAGTTGGAACTTATGGTTATG
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gtatgtgatta--aaaatgatgatgaaatgtatgcttttatttttgtttagctgcttcacttatatggaatttccttctatagGAATATAATGCAAAGCTTTCAGATTTCGGTCTGGCAAAAGCTGGCCCTCAGGAAGGTGACACACATGTTTCAACAAGGGTTGTTGGAACATATGGCTATGMapped 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|10232151|gb|BE801039.1|BE801039EST: AACCAGTCATTTATAGAGATTTTAAAACATCTAACATCTTGCTTGATACG GAGTATAATGCGAAGCTTTCAGATTTTGGTCTAGCAAAAGCAGGGCCTCAA
genomic: AACCAGTCATTTATAGAGATTTTAAAACATCTAACATCTTGCTTGATACGgtatgtggtt ... tttttattagGAGTATAATGCGAAGCTTTCAGATTTTGGTCTAGCAAAAGCAGGGCCTCAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gagaagctttttttgtttttttggattacttattgacatgtagtgtttttattagGAGTATAATGCGAAGCTTTCAGATTTTGGTCTAGCAAAAGCAGGGCCTCAAGGAGACAAAACACATGTTTCTACCAGGGTAGTTGGAACTTATGGTTATG
tattgac putative branch site (score: 2)
tttttatt putative PPT
tttttttgtttttttg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtggttactgaaataaggttttgagaagctttttttgtttttttggattacttattgacatgtagtgtttttattagGAGTATAATGCGAAGCTTTCAGATTTTGGTCTAGCAAAAGCAGGGCCTCAAGGAGACAAAACACATGTTTCTACCAGGGTAGTTGGAACTTATGGTTATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA