Sequence
atgc intronic sequence ATGC exonic sequencegtgagttacctcatttgtgaagcttttaaaggacattccaatttttattactaactttccccctaacaaatacaagtaataaccttggtcaagaacttgttacttggcagCCAGAAAAGAAAAACCCTGGATTAACTCCAATGGATTGGGTCAAGTTTCTTGGATCAGCTGTAGTTGGTCTG
Basic information
species | Glycine max |
transcript | GLYMA16G05180.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G05180.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os12g29550.1 (Oryza sativa), 3'ss of exon 9
gtgagttacctcatttgtgaagcttttaaaggacattccaatttttat-tactaactttccccctaacaaatacaagtaataaccttggtcaagaacttgttacttggcagCCAGAAAAGAAAAACCCTGGATTAACTCCAATGGATTGGGTCAAGTTTCTTGGATCAGCTGTAGTTGGTCTG
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gtaagatgaatcactagagttgagataaatgtgtagcatttttagcatcttttagctatatctgtggc---tgttagcaaggacctgaaattgaaacttact--tttgcagCCAGAGAAGAAGAACCCTACTTTAACACCAATGGATTGGGTCAAGTTTCTTATTTCTGCTGTTATTGGTCTG
upper sequence: GLYMA16G05180.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os11g32490.1 (Oryza sativa), 3'ss of exon 9
--------gtgagttacctcatttgtgaagcttttaaaggacattccaatttttattactaactttccccctaacaaatacaagtaataaccttggtcaagaacttgttacttggcagCCAGAAAAGAAAAACCCTGGATTAACTCCAATGGATTGGGTCAAGTTTCTTGGATCAGCTGTAGTTGGTCTG
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gtaatatagaagcgtgcttcatatgtgatgttttttatat-cattttcctctctggttccttctgttcttcttgtgtgtacc-----tgatattagt---atttctatgattt---agCCAGAGAAGAAGAACCCTAGTTTGACTCCAATGGATTGGGTGAAATTTCTTATTTCTGCTGTGTTAGGTTTG
upper sequence: GLYMA16G05180.1 (Glycine max), 3'ss of exon 9
lower sequence: AT3G19340.1 (Arabidopsis thaliana), 3'ss of exon 9
gtgagttacctcatttgtgaagcttttaaaggacattccaatttttattactaactttccccctaacaaatacaagtaataaccttggtcaagaacttgttacttg-gcagCCAGAAAAGAAAAACCCTGGATTAACTCCAATGGATTGGGTCAAGTTTCTTGGATCAGCTGTAGTTGGTCTG
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gtaagtttctgttcttgt----cttct---------ttccttttgcatcgctggattttgtagcgaaaattgcaaac--tagctgcaat--aacattaatgtcttgtgcagCCTGAGAAAAGAAACCCTGGACTGACTCCAATGGATTGGGTCAAATTTCTAATATCTGCAGTAGTTGGTCTG
upper sequence: GLYMA16G05180.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv14s0068g01000.t01 (Vitis vinifera), 3'ss of exon 9
------------------------gtgagttacctcatttgtgaagcttttaaaggacattccaatttttattactaactttccccctaacaa------atacaagtaataaccttggtcaagaacttgttacttg-gcagCCAGAAAAGAAAAACCCTGGATTAACTCCAATGGATTGGGTCAAGTTTCTTGGATCAGCTGTAGTTGGTCTG
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gtgagttcttgtctgctttctctcctcccccctctcactcactctccatctcaggtat-ttaaagttttaattgcacctttttctctcaaaagttttctatacagctgttaacatgtcttgtaacattttcctttgagcagCCAGAAAAGAAAAATCCAGGTTTAACTCCGATGGACTGGGTCAAGTTCATTGCGTCTGCTGTAGTTGGGCTGMapped 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|192334227|gb|FK026608.1|FK026608EST: ATGTGAAGCATTTCAAAAACATTCCAATGGCCGATATGGAAATAGTTCTT CCAGAAAAGAAAAACCCTGGATTAACTCCAATGGATTGGGTCAAGTTTCTT
genomic: ATGTGAAGCATTTCAAAAACATTCCAATGGCCGATATGGAAATAGTTCTTgtgagttacc ... tacttggcagCCAGAAAAGAAAAACCCTGGATTAACTCCAATGGATTGGGTCAAGTTTCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttccccctaacaaatacaagtaataaccttggtcaagaacttgttacttggcagCCAGAAAAGAAAAACCCTGGATTAACTCCAATGGATTGGGTCAAGTTTCTTGGATCAGCTGTAGTTGGTCTG
taataac putative branch site (score: 1)
aaatacaagtaataa 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 |
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagttacctcatttgtgaagcttttaaaggacattccaatttttattactaactttccccctaacaaatacaagtaataaccttggtcaagaacttgttacttggcagCCAGAAAAGAAAAACCCTGGATTAACTCCAATGGATTGGGTCAAGTTTCTTGGATCAGCTGTAGTTGGTCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG