Sequence
atgc intronic sequence ATGC exonic sequencegtatatttttaatccaattccatcctcactgtgttatttctacttgttttcacatccttgcaaaaaaataacatctcaaaattattttacttactccatccagGTTACTTGCGAGTGTTTGATTACTCAAAAGAGCAACTTATATGTGGCGGGAAAAGTTATTATGGTGCTTTGTTATGTTGTGCATGGAG
Basic information
species | Glycine max |
transcript | GLYMA03G33740.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G33740.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os12g07450.2 (Oryza sativa), 3'ss of exon 7
gtatatttttaatccaattccatcctcactgtgttatttctacttgttttcacatccttgcaaaaaaataacatctcaaaattattttactta-ctccatccagGTTACTTGCGAGTGTTTGATTACTCAAAAGAGCAACTTATATGTGGCGGGAAAAGTTATTATGGTGCTTTGTTATGTTGTGCATGGAG
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gtacttcctttgtcccaatagtagatggttct-ttattccttatagaacccactgattct-----gtattgcttattaaaataacactataaaaccttatttagGTTATTTGAGAGTGTTTGACTTTTCGAAGGAGCAACTAATATTTGGTGGGAAAAGTTATTATGGTGCACTATTGTGTTGCACATGGAG
upper sequence: GLYMA03G33740.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os11g07480.1 (Oryza sativa), 3'ss of exon 7
gtatatttttaatccaattccatcctcactgtgttatttctacttgttttcacatccttgcaaa-aaaataacatctcaaaattattttacttactccatccagGTTACTTGCGAGTGTTTGATTACTCAAAAGAGCAACTTATATGTGGCGGGAAAAGTTATTATGGTGCTTTGTTATGTTGTGCATGGAG
|| ||| ||||| | || | |||| | | | ||| || | | ||||| | | || | | | |||||||||| || ||||||||||| | |||| |||||||| |||| ||| ||||||||||||| ||| ||| | || ||||| | |||||
--gtaatttctgtccaaaa--acccaatattcaagatttttgcaaatgaaaggttccccgcgttcatagcaacattgtactaacgttgttca-atcatatccagGTTATTTACGAGTGTTTGACTTTGCAAAGGAGCAACTAATATTTGGTGGGAAAAGTTATTTTGGGGCTCTATTGTGTTGCTCTTGGAG
upper sequence: GLYMA03G33740.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv08s0040g01960.t01 (Vitis vinifera), 3'ss of exon 7
gtatatttttaatccaattccatcctcactgtgttatttctacttgttttcacatccttgcaaaaaaataacatctcaaaatt-attttacttactccatccagGTTACTTGCGAGTGTTTGATTACTCAAAAGAGCAACTTATATGTGGCGGGAAAAGTTATTATGGTGCTTTGTTATGTTGTGCATGGAG
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gtat-ttcttgatt---ttgcattt----tggggttgtcctgcttttttg---gtttgtacatgtaaatagcattgattaactgagatcaattgctgaatgcagGTTATCTGAGAGTGTTTGACTTCTCAAGAGAACAACTTATATGTGGTGGCAAAAGCTATTATGGTGCTCTATTATGTTGTGCTTGGAGMapped 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|17023019|gb|BM094053.1|BM094053EST: TATTTCTTTCTCAATGGATGGGGCATACTTAGCAACTGTTGGACGAGATG GTTACTTGCGAGTGTTTGATTACTCAAAAGAGCAACTTATATGTGGCGGGA
genomic: TATTTCTTTCTCAATGGATGGGGCATACTTAGCAACTGTTGGACGAGATGgtatattttt ... ctccatccagGTTACTTGCGAGTGTTTGATTACTCAAAAGAGCAACTTATATGTGGCGGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcacatccttgcaaaaaaataacatctcaaaattattttacttactccatccagGTTACTTGCGAGTGTTTGATTACTCAAAAGAGCAACTTATATGTGGCGGGAAAAGTTATTATGGTGCTTTGTTATGTTGTGCATGGAG
tacttac putative branch site (score: 1)
cttactcc CT-rich tract
aaaaaaataacatctc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatatttttaatccaattccatcctcactgtgttatttctacttgttttcacatccttgcaaaaaaataacatctcaaaattattttacttactccatccagGTTACTTGCGAGTGTTTGATTACTCAAAAGAGCAACTTATATGTGGCGGGAAAAGTTATTATGGTGCTTTGTTATGTTGTGCATGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA