Sequence
atgc intronic sequence ATGC exonic sequencegtagttttctttaccttttctatggttgaaattctgtataatactgagctggcagacttgtaggatcacgttgactgaacacatcaagatatgatttcatattagttattaattttatcttgttcatgcaaatacagGGTCCCAAGTCACCTTTCAAAGAGTTGGATATAAAAGCGCCAATCAGACAACAATTAGCAAATATAGTCATTTTGGAGTTTCCTGTTGTTTTTGTTTTCT
Basic information
species | Glycine max |
transcript | GLYMA16G32840.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G32840.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv15s0021g02850.t01 (Vitis vinifera), 3'ss of exon 3
gtagttttctttaccttttctatggttgaaattctgtataatactgagctggcagacttgtaggatcacgttgactgaacacatcaagatatgatttcatattagttattaattttatcttgttcatgcaaatacagGGTCCCAAGTCACCTTTCAAAGAGTTGGATATAAAAGCGCCAATCAGACAACAATTAGCAAATATAGTCATTTTGGAGTTTCCTGTTGTTTTTGTTTTCT
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-------------------------taaaaaaaaaaaaaaccact--atcaaaacattttt----tccccttg--tgaacaagtaaaaaaa----tttatatctgaaaaaaaatctaatccttccatgtcactgcagGACCCCAGGTCACCATTCCGTGAGTTGGATATAAGAGCTCCAATAAGACAGCAATTAGCCAATTTAGTTATTCTGGAGCACCCTCTGATTCATGTTTCCC
upper sequence: GLYMA16G32840.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv15s0048g00080.t01 (Vitis vinifera), 3'ss of exon 3
gtagttttctttaccttttctatggttgaaattctgtataatactgagctggcagac-ttgtaggatcacgttgactgaacacatcaagatatgatttcatattagttattaattttatcttgttcatgcaaatacagGGTCCCAAGTCACCTTTCAAAGAGTTGGATATAAAAGCGCCAATCAGACAACAATTAGCAAATATAGTCATTTTGGAGTTTCCTGTTGTTTTTGTTTTCT
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--------------------------------------aaacggaaaaaaaaaaaacactatcaaaacatttttcccctcgtgaacaagaaaaaaaattctatctgaaaaaaaatctaatccttccatgtcactatagGGTCCCAGGTCACCTTTCTATGAGTTGGATATAAGAGCTCCAATAAGACATCAATTAGCCAGTTTAGTTATTCTGGAGTACCCTCTGATTCATGTTTTCC
upper sequence: GLYMA16G32840.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv13s0156g00650.t01 (Vitis vinifera), 3'ss of exon 4
gtagttttctttaccttttctatggttgaaattctgtataatactgagctggcagacttgtaggatcacgttgactgaacacatcaagatatgatttcatattagttattaattttatcttgttcatgcaaatacagGGTCCCAAGTCACCTTTCAAAGAGTTGGATATAAAAGCGCCAATCAGACAACAATTAGCAAATATAGTCATTTTGGAGTTTCCTGTTGTTTTTGTTTTCT
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----------------------------aaa----ataaaaaataaaaaagacactattggaacattttttccccttgggaag--gagaaaaaattctatttga---acaaaatctaacccttccatgtcactgcagGGCCCCAGGTCACCTTTCCATGAGTTGGATATAAGAGCTCCAATAAGACAGCAATTTGCCAATTTAGCTATTCTAGAGTACCCTCAGATTCATGTTTTCCMapped 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|16343738|gb|BI969333.1|BI969333EST: GTGAAGTCCAGCTGGANNNTCTNNNGCTNNNCATTCGTAAATACCCGAAG GGTCCCAAGTCACCTTTCAAAGAGTTGGATATAAAAGCGCCAATCAGACAA
genomic: GTGAAGTCCAGCTGGATTGTCTAAAGCTTTTCATTCGTAAATACCCGAAGgtagttttct ... gcaaatacagGGTCCCAAGTCACCTTTCAAAGAGTTGGATATAAAAGCGCCAATCAGACAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atcaagatatgatttcatattagttattaattttatcttgttcatgcaaatacagGGTCCCAAGTCACCTTTCAAAGAGTTGGATATAAAAGCGCCAATCAGACAACAATTAGCAAATATAGTCATTTTGGAGTTTCCTGTTGTTTTTGTTTTCT
tattaat putative branch site (score: 2)
atatgatttcatatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagttttctttaccttttctatggttgaaattctgtataatactgagctggcagacttgtaggatcacgttgactgaacacatcaagatatgatttcatattagttattaattttatcttgttcatgcaaatacagGGTCCCAAGTCACCTTTCAAAGAGTTGGATATAAAAGCGCCAATCAGACAACAATTAGCAAATATAGTCATTTTGGAGTTTCCTGTTGTTTTTGTTTTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG