Sequence
atgc intronic sequence ATGC exonic sequencegtaactttttggtaaagttagctatttcctttatgtttcatatcactactgtcggttcttacattttgaaattctcatgtgtagTTTTCGAAAGCAAGACGGAGTATAATACCTGCTGGAGATACTTCTCAATTTATACCATCCAGGGATGCTGACATTGCTATCCTGGAAGAACCAGAACATT
Basic information
species | Glycine max |
transcript | GLYMA19G38720.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G38720.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os11g05990.1 (Oryza sativa), 3'ss of exon 4
------gtaactttttggtaa-agttagctatttcctttatgtttcatatcactactgtcggttcttacattttgaaattctcatgtgtagTTTTCGAAAGCAAGACGGAGTATAATACCTGCTGGAGATACTTCTCAATTTATACCATCCAGGGATGCTGACATTGCTATCCTGGAAGAACCAGAACATT
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gtaagggttctcttttcataacaagtgaataaccttgcaacattgtgt-tcattacttg----tctaatatcaattgtttgcaaagtatagTTTCAAAAAGAACGGAGAAGCATAATTCCTGCGGGGGACACTTCACAATTTATACCATCAAAGGAAGCTGACATTGCTATTTTGGAAGAGCCTGAGCACC
upper sequence: GLYMA19G38720.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G11670.1 (Arabidopsis thaliana), 3'ss of exon 4
--------gtaactttttggtaaagttagctatttcctttatgtttcatatcactactgtcggttcttacattttga---aattctcatgt-----gtagTTTTCGAAAGCAAGACGGAGTATAATACCTGCTGGAGATACTTCTCAATTTATACCATCCAGGGATGCTGACATTGCTATCCTGGAAGAACCAGAACATT
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gtatgttgatcattttggattctatttttttatttctatggctgccaatatgtttttcaattatttctatagagtaactgagctttctggtttcttatagTTTTCAAAAGAAAGGCGCAGCATATTTCCTGCTGGTGACACTTCTCAATTTATATCGTCAAAAGATGCTGACATTGCTATACTTGAAGAACCTGAACATC
upper sequence: GLYMA19G38720.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv08s0105g00260.t01 (Vitis vinifera), 3'ss of exon 4
gtaactttttggtaaagttagctatttcctttatgtttcatatcactactgtcggttctt-acat-tttgaaattctcatgtgt-agTTTTCGAAAGCAAGACGGAGTATAATACCTGCTGGAGATACTTCTCAATTTATACCATCCAGGGATGCTGACATTGCTATCCTGGAAGAACCAGAACATT
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gtagttatttgatgaactggattcttcactctcttgttaat--cattatagtcaataaatgacatatttgttcttgttgtttcttagTTTTCAAAATCTAGGCGGAGTATTATACCTGCTGGAGATACTTCTCAGTTTATTCCATCAAGGGATGCTGATATTGCAATCCTGGAAGAACCAGAACATCMapped 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|207762733|gb|GD732964.1|GD732964EST: AAAGGATTGGTTTCAAGGCAGACTTCAAAATTTCTTTTTATCCCGGGAAG TTTTCGAAAGCAAGACGGAGTATAATACCTGCT
genomic: AAAGGATTGGTTTCAAGGCAGACTTCAAAATTTCTTTTTATCCCGGGAAGgtaacttttt ... tcatgtgtagTTTTCGAAAGCAAGACGGAGTATAATACCTGCT
EST:
gi|298180947|gb|HO022386.1|HO022386EST: AAAGGATTGGTTTCAAGGCAGACTTCAAAATTTCTTTTTATCCCGGGAAG TTTTCGAAAGCAAGACGGAGTATAATACCTGCTGGAGATACTTCTCAATTT
genomic: AAAGGATTGGTTTCAAGGCAGACTTCAAAATTTCTTTTTATCCCGGGAAGgtaacttttt ... tcatgtgtagTTTTCGAAAGCAAGACGGAGTATAATACCTGCTGGAGATACTTCTCAATTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttatgtttcatatcactactgtcggttcttacattttgaaattctcatgtgtagTTTTCGAAAGCAAGACGGAGTATAATACCTGCTGGAGATACTTCTCAATTTATACCATCCAGGGATGCTGACATTGCTATCCTGGAAGAACCAGAACATT
ttcttac putative branch site (score: 2)
ttctcat putative PPT
ttacattttgaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaactttttggtaaagttagctatttcctttatgtttcatatcactactgtcggttcttacattttgaaattctcatgtgtagTTTTCGAAAGCAAGACGGAGTATAATACCTGCTGGAGATACTTCTCAATTTATACCATCCAGGGATGCTGACATTGCTATCCTGGAAGAACCAGAACATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC