Sequence
atgc intronic sequence ATGC exonic sequence...tttatgatatcactgcaagttagaacatttggcctgaagttattcaaagcttttacctggttttcagactttggtttaaacaattaggatgatgtttcagGTTGCACTGGTAGTTGGTGGGGGTAACATCTTCCGTGGATCCTCCTGGGCTGGAAGTAGCGGACTAGACCGCTCATCTGCTGATTATATTGG
Basic information
species | Glycine max |
transcript | GLYMA08G15610.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G15610.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os01g73450.1 (Oryza sativa), 3'ss of exon 3
tttatgatatcactgcaagttagaacatttggcctgaagttattcaaagcttttacctggttttcagactttggtttaaacaattaggatgatg-----tttcagGTTGCACTGGTAGTTGGTGGGGGTAACATCTTCCGTGGATCCTCCTGGGCTGGAAGTAGCGGACTAGACCGCTCATCTGCTGATTATATTGG
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----ctgtgttccaacgaagtggtat-tatgctatgtgtatgttcctcttgtcttctctattgtagaaacatatgctgtacattaaagatcgggaacccttgcagGTTGCTATTGTTGTTGGTGGCGGCAATATCTTCCGCGGGGCCTCTTGGGCTGGATGTAGTGGACTCGACCGCTCATCAGCAGATTACATTGG
upper sequence: GLYMA08G15610.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G139462_T06 (Zea mays), 3'ss of exon 3
-------tttatgatatcactgcaagttagaacatttggcctgaagttattc--aaagcttttacctggttttcagactttggtttaaacaattaggatgatgtttcagGTTGCACTGGTAGTTGGTGGGGGTAACATCTTCCGTGGATCCTCCTGGGCTGGAAGTAGCGGACTAGACCGCTCATCTGCTGATTATATTGG
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caagtgcttttggatgtgtatttgtgtgtgtgtgatttaccttttgttttctctaaagcaatcgcatgatgtgca---------ttaaaaaatgtgagagcccttgcagGTTGCTATTGTTGTTGGCGGTGGCAATATCTTCCGTGGGGCCTCTTGGGCTGGATGTAGTGGGCTTGACCGCTCATCTGCGGATTACATCGG
upper sequence: GLYMA08G15610.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv04s0044g00890.t01 (Vitis vinifera), 3'ss of exon 4
tttatgatatcactgcaagttagaacatttggcctgaagttattcaaagcttt-tacctggttttcagactttggt---ttaaacaattaggat-gatgtttcagGTTGCACTGGTAGTTGGTGGGGGTAACATCTTCCGTGGATCCTCCTGGGCTGGAAGTAGCGGACTAGACCGCTCATCTGCTGATTATATTGG
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gttaggacat----gcaatcggacttgtatgaactaaaga-attggaagcttcattgttaactttctttatatggtatcttaatcattgttgatagatgcttcagGTTGCAATTGTGGTTGGTGGGGGAAATATTTTTCGTGGATCCTCTTGGGCAGGAAGTGGTGGCCTTGATCGTTCTTCTGCTGATTACATTGGMapped 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|193656689|gb|FK603721.1|FK603721EST: CCATGGCCATTGCAAGGGAGGTGGCAGCAGTGACTCGCCTTGGCATTGAG GTTGCACTGGTAGTTGGTGGGGGTAACATCTTCCGTGGATCCTCCTGGGCT
genomic: CCATGGCCATTGCAAGGGAGGTGGCAGCAGTGACTCGCCTTGGCATTGAGgtgactacaa ... gatgtttcagGTTGCACTGGTAGTTGGTGGGGGTAACATCTTCCGTGGATCCTCCTGGGCT
EST:
gi|16277118|gb|BI942213.1|BI942213EST: CCATGGCCATTGCAAGGGAGGTGGCAGCAGTGACTCGCCTTGGCATTGAG GTTGCACTGGTAGTTGGTGGGGGTAACATCTTCCGTGGATCCTCCTGGGCT
genomic: CCATGGCCATTGCAAGGGAGGTGGCAGCAGTGACTCGCCTTGGCATTGAGgtgactacaa ... gatgtttcagGTTGCACTGGTAGTTGGTGGGGGTAACATCTTCCGTGGATCCTCCTGGGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaagcttttacctggttttcagactttggtttaaacaattaggatgatgtttcagGTTGCACTGGTAGTTGGTGGGGGTAACATCTTCCGTGGATCCTCCTGGGCTGGAAGTAGCGGACTAGACCGCTCATCTGCTGATTATATTGG
tttaaacaatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttatgatatcactgcaagttagaacatttggcctgaagttattcaaagcttttacctggttttcagactttggtttaaacaattaggatgatgtttcagGTTGCACTGGTAGTTGGTGGGGGTAACATCTTCCGTGGATCCTCCTGGGCTGGAAGTAGCGGACTAGACCGCTCATCTGCTGATTATATTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - cactgca
- - - - - - - - - - - - - - - ggcctga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gactttg