Sequence
atgc intronic sequence ATGC exonic sequencegtgagttacctcatttgtgaagcttttaatgaacattctaatttttattactaactttcccccaacaaatacaagtaataaccttggtcaagaacttgttacttggcagCCAGAAAAGAAAAACCCTGGATTAACTCCAATGGATTGGGTCAAGTTTCTTGGATCAGCTATAGTTGGTTTG
Basic information
species | Glycine max |
transcript | GLYMA19G27800.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G27800.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os12g29550.1 (Oryza sativa), 3'ss of exon 9
gtgagttacctcatttgtgaagcttttaatgaacattctaatttttattactaactttcccccaacaaatacaagtaataaccttggtcaagaacttgttacttggcagCCAGAAAAGAAAAACCCTGGATTAACTCCAATGGATTGGGTCAAGTTTCTTGGATCAGCTATAGTTGGTTTG
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gtaagatgaatcactagagttgagataaatgtgtagcatttttagcatcttttagctatatctg-tggctgttagcaaggacctgaaattgaaacttact--tttgcagCCAGAGAAGAAGAACCCTACTTTAACACCAATGGATTGGGTCAAGTTTCTTATTTCTGCTGTTATTGGTCTG
upper sequence: GLYMA19G27800.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os11g32490.1 (Oryza sativa), 3'ss of exon 9
--------gtgagttacctcatttgtgaagcttttaatgaacattctaatttttattactaactttcccccaacaaatacaagtaataaccttggtcaagaacttgttacttggcagCCAGAAAAGAAAAACCCTGGATTAACTCCAATGGATTGGGTCAAGTTTCTTGGATCAGCTATAGTTGGTTTG
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gtaatatagaagcgtgcttcatatgtgatgttttttat-atcattttcctctctggttccttctgttcttct-tgtgtgtacctgata---ttagt---atttctatgattt---agCCAGAGAAGAAGAACCCTAGTTTGACTCCAATGGATTGGGTGAAATTTCTTATTTCTGCTGTGTTAGGTTTG
upper sequence: GLYMA19G27800.1 (Glycine max), 3'ss of exon 9
lower sequence: AT3G19340.1 (Arabidopsis thaliana), 3'ss of exon 9
gtgagttacctcatttgtgaagcttttaatgaacatt-ctaatttttattactaactttcccccaacaaatacaagtaataaccttggtcaagaacttgttacttggcagCCAGAAAAGAAAAACCCTGGATTAACTCCAATGGATTGGGTCAAGTTTCTTGGATCAGCTATAGTTGGTTTG
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gtaagtttctgttcttgtctt-ctttccttttgcatcgctggattttgtagcgaaaattgca-----aactagctgcaataacatt----aatgtcttgt------gcagCCTGAGAAAAGAAACCCTGGACTGACTCCAATGGATTGGGTCAAATTTCTAATATCTGCAGTAGTTGGTCTG
upper sequence: GLYMA19G27800.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv14s0068g01000.t01 (Vitis vinifera), 3'ss of exon 9
-------------------gtgagttacctcatttgtgaagcttttaat---gaacattctaatttttattactaacttt--cccccaacaa------atacaagtaataaccttggtcaagaacttgttacttg-gcagCCAGAAAAGAAAAACCCTGGATTAACTCCAATGGATTGGGTCAAGTTTCTTGGATCAGCTATAGTTGGTTTG
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gtgagttcttgtctgctttctctcctcccccctctcactcactctccatctcaggtatttaaagttttaattgcacctttttctctcaaaagttttctatacagctgttaacatgtcttgtaacattttcctttgagcagCCAGAAAAGAAAAATCCAGGTTTAACTCCGATGGACTGGGTCAAGTTCATTGCGTCTGCTGTAGTTGGGCTGMapped 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|13481712|gb|BG511055.1|BG511055EST: ATGTGAAGCATTTCAAAAACATTCCAATGGCTGATATGGAAATAGTTCTT CCAGAAAAGAAAAACCCTGGATTAACTCCAATGGATTGGGTCAAGTTTCTT
genomic: ATGTGAAGCATTTCAAAAACATTCCAATGGCTGATATGGAAATAGTTCTTgtgagttacc ... tacttggcagCCAGAAAAGAAAAACCCTGGATTAACTCCAATGGATTGGGTCAAGTTTCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttcccccaacaaatacaagtaataaccttggtcaagaacttgttacttggcagCCAGAAAAGAAAAACCCTGGATTAACTCCAATGGATTGGGTCAAGTTTCTTGGATCAGCTATAGTTGGTTTG
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 |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagttacctcatttgtgaagcttttaatgaacattctaatttttattactaactttcccccaacaaatacaagtaataaccttggtcaagaacttgttacttggcagCCAGAAAAGAAAAACCCTGGATTAACTCCAATGGATTGGGTCAAGTTTCTTGGATCAGCTATAGTTGGTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT