Sequence
atgc intronic sequence ATGC exonic sequence...tcttttttcctcatttatcgtaattaatctcatttttaaccttaaaagagacatatgaccggtgttgtggtatgtgtgtgtgtgtgtttcacttttgcagACTGACACAGCTTCTGTCTTGTTAGAAGCCATTGGATACATAAGATTCCTTCAGGGTCAAATTGAG
Basic information
species | Glycine max |
transcript | GLYMA07G02120.2 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G02120.2 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os02g17680.1 (Oryza sativa), 3'ss of exon 4
-tcttttttcctcatttatcgtaattaatctcatttt--taaccttaaaagagacatatgaccggtgttgtggtatgtgtgtgtgtgtgtttcacttttgcagACTGACACAGCTTCTGTCTTGTTAGAAGCCATTGGATACATAAGATTCCTTCAGGGTCAAATTGAG
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gggtgatgaccagtcatgtagtagtaaaagaagatccaatattccagagaaaaatacaaaaaagagatcctgacatgggctaacctctcttttatgc---cagACTGACACTGCGTCTGTACTCCTTGAAGCCATTGGGTACATCAGATTCCTACACGGTCAAATTGAG
upper sequence: GLYMA07G02120.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G105494_T02 (Zea mays), 3'ss of exon 4
tcttttttcctcatttatcgtaattaatctcatttttaaccttaaaagagacatatgaccggtgttgtggtatgtgtg-tgtgtgtgtttcacttttg----cagACTGACACAGCTTCTGTCTTGTTAGAAGCCATTGGATACATAAGATTCCTTCAGGGTCAAATTGAG
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--ttagctacacatcatgtaaaagaagatccattttta---cagacaaagatacaaaaacgagatcctgacatggctaacctctttctctcttttttggtggcagACTGACACAGCGTCTGTACTCCTTGAAGCCATTGGGTACATCAGATTCCTCCATAGTCAAATTGAG
upper sequence: GLYMA07G02120.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv09s0002g04120.t01 (Vitis vinifera), 3'ss of exon 4
---tcttttttcctcatttatcgtaattaatctcatttttaaccttaaaagagacatatgaccggtg-ttgtggtatgtgtgtgtgtgtgtttcacttttgcagACTGACACAGCTTCTGTCTTGTTAGAAGCCATTGGATACATAAGATTCCTTCAGGGTCAAATTGAG
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aaaattttctcgttctttgatctgggtt--tttctcttttaacattaaa-gagggatgagaaagatgactggggtgaat-tgtgggtgtgtttctcttttgcagACTGACACTGCTTCTGTCTTGTTAGAAGCTATTGGGTATATCAGATTCCTTCAGGGTCAAATTGAGMapped 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|22522662|gb|BU081473.1|BU081473EST: TAGGTGATAGAATAACAGCTCTTCACCAGCTAGTTTCCCCGTTCGGAAAG ACTGACACAGCTTCTGTCTTGTTATAAGCCATTGGATACATAAGATTCCTT
genomic: TAGGTGATAGAATAACAGCTCTTCACCAGCTAGTTTCCCCGTTCGGAAAGgtaataaaca ... acttttgcagACTGACACAGCTTCTGTCTTGTTAGAAGCCATTGGATACATAAGATTCCTT
EST:
gi|13312684|gb|BG406335.1|BG406335EST: TAGGTGATAGAATAACAGCTCTTCACCAGCTAGTTTCCCCGTTCGGAAAG ACTGACACAGCTTCTGTCTTGTTAGAAGCCATTGGATACATAAGATTCCTT
genomic: TAGGTGATAGAATAACAGCTCTTCACCAGCTAGTTTCCCCGTTCGGAAAGgtaataaaca ... acttttgcagACTGACACAGCTTCTGTCTTGTTAGAAGCCATTGGATACATAAGATTCCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagagacatatgaccggtgttgtggtatgtgtgtgtgtgtgtttcacttttgcagACTGACACAGCTTCTGTCTTGTTAGAAGCCATTGGATACATAAGATTCCTTCAGGGTCAAATTGAG
tttcactttt CT-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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcttttttcctcatttatcgtaattaatctcatttttaaccttaaaagagacatatgaccggtgttgtggtatgtgtgtgtgtgtgtttcacttttgcagACTGACACAGCTTCTGTCTTGTTAGAAGCCATTGGATACATAAGATTCCTTCAGGGTCAAATTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC