Sequence
atgc intronic sequence ATGC exonic sequence...tttagttgacactatgcatcagaaggatgacagtacctagcagttgcagttatgtttcatttaaagtttaacattttttctgtgttttgtggacaatcagGCTGTTTGGGCATTAGGAAATGTTGCTGGAGATTCACCTAGATGCCGTGATCTTGTTCTCGGTCATGGAGCTTTGCTTCCTCTATTGGCACAATTGAATG
Basic information
species | Glycine max |
transcript | GLYMA03G39210.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G39210.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os01g14950.1 (Oryza sativa), 3'ss of exon 4
---tttagttgacact--atgcatcagaaggatgacagtacctagcagttgcagttatgttt-----catt-taaagtttaacattttttctgtgttttgtggacaatc---agGCTGTTTGGGCATTAGGAAATGTTGCTGGAGATTCACCTAGATGCCGTGATCTTGTTCTCGGTCATGGAGCTTTGCTTCCTCTATTGGCACAATTGAATG
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gtatccgatcatctcctgacttgtctttgtgctttctgtacttccttgatattattttgattgagtgcattgttggagttattaatgtttttacctcttgaaaaaaaattgaagGCTGTATGGGCATTGGGCAATGTTGCTGGTGATTCCCCTAAGTGCCGTGACCTTGTTCTTGCCAATGGTGCATTGCTGCCTCTGCTAGCACAGTTGAATG
upper sequence: GLYMA03G39210.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv14s0060g01510.t01 (Vitis vinifera), 3'ss of exon 4
tttagttgacactatgcatcagaaggatgacagtacctagcagttgca-gttatgtttcatttaaagtttaacattttttctgtgttttgt---ggacaatcagGCTGTTTGGGCATTAGGAAATGTTGCTGGAGATTCACCTAGATGCCGTGATCTTGTTCTCGGTCATGGAGCTTTGCTTCCTCTATTGGCACAATTGAATG
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--aaattcttggtgaatttccggttaat--cagcgcttaaaagtttaatattgggatgaagtttgaaattgatttctcatacctgttttattttgctcatttagGCTGTGTGGGCCCTAGGAAATGTTGCCGGTGATTCCCCCAGATGCCGTGATCTTGTCCTTGGCCATGGGGCTCTGCTTCCTTTGCTGGCACAGTTGAACG
upper sequence: GLYMA03G39210.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S63_171V6.1 (Physcomitrella patens), 3'ss of exon 4
tttagttgacactatgcatcagaaggatgacagtacctagcagttgca-gttatgtttcatttaaagtttaacattt--tttctg----tgttttgtggacaatcagGCTGTTTGGGCATTAGGAAATGTTGCTGGAGATTCACCTAGATGCCGTGATCTTGTTCTCGGTCATGGAGCTTTGCTTCCTCTATTGGCACAATTGAATG
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------cataacggtccagtgtaacaattgcttgtttaaaaacgtgaacgtcgtactttatctgagcttctgcatctaatttctaataatgccttgtcc-cgtccagGCTGTTTGGGCTTTGGGCAACGTCGCTGGTGACTCTCCTAAATGCCGGGATCTTGTACTTGGTCATGGAGCTTTAATGCCTTTGCTCGCTCAGCTTACCGMapped 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|13252252|gb|BG363155.1|BG363155EST: CAATTTTTGTAAAGCTACTTGGTTCTCCCAGTGATGATGTCCGTGAACAG GCTGTTTGGGCATTAGGAAATGTTGCTGGAGATTCACCTAGATGCCGTGAT
genomic: CAATTTTTGTAAAGCTACTTGGTTCTCCCAGTGATGATGTCCGTGAACAGgtacatttca ... ggacaatcagGCTGTTTGGGCATTAGGAAATGTTGCTGGAGATTCACCTAGATGCCGTGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcagttatgtttcatttaaagtttaacattttttctgtgttttgtggacaatcagGCTGTTTGGGCATTAGGAAATGTTGCTGGAGATTCACCTAGATGCCGTGATCTTGTTCTCGGTCATGGAGCTTTGCTTCCTCTATTGGCACAATTGAATG
gtttaac putative branch site (score: 3)
tatgtttcatttaaag 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttagttgacactatgcatcagaaggatgacagtacctagcagttgcagttatgtttcatttaaagtttaacattttttctgtgttttgtggacaatcagGCTGTTTGGGCATTAGGAAATGTTGCTGGAGATTCACCTAGATGCCGTGATCTTGTTCTCGGTCATGGAGCTTTGCTTCCTCTATTGGCACAATTGAATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - -ctatgca
- - - - - - - - - - - - - - - - - - - - cagttgc