Sequence
atgc intronic sequence ATGC exonic sequence...aatagggttgatgagatgcaaaatagtcagagtgtcgcttgtaccacctagtctgttcagtcaaacttacttctttatgaaatggtatggaattgtgtagGTAGTCAATGGACCTCGAGGACCTGTTGAATCTCCAAACGACATGTTTGAAGTATTCTATATTGATTATGGAAATCAAGAAGAAGTACCTTACTCTCAGC
Basic information
species | Glycine max |
transcript | GLYMA05G33320.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G33320.1 (Glycine max), 3'ss of exon 15
lower sequence: LOC_Os02g32350.1 (Oryza sativa), 3'ss of exon 14
----aatagggttgatgagatgcaaaatagtcagagtgtcgcttgtaccacctagtctgttcagtcaaacttacttctttatgaaatggtatggaattgtgtagGTAGTCAATGGACCTCGAGGACCTGTTGAATCTCCAAACGACATGTTTGAAGTATTCTATATTGATTATGGAAATCAAGAAGAAGTACCTTACTCTCAGC
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aaccattttagtcctggacttgttaagttga-acattcccgtttctagtttctggttt-tcaaaaataattaggaagtatatccattttaactga--tctgcagATTGTGAATGGACCTCGAGGAGCTGTATCATCTCAAGACGACAAGTTTGAAGTATTCTACATTGACTATGGCAACCAAGAAGTCGTTCCTTACAGTCGCA
upper sequence: GLYMA05G33320.1 (Glycine max), 3'ss of exon 15
lower sequence: AC207890.3_FGT002 (Zea mays), 3'ss of exon 14
----aatagggttgatgagatgcaaaatagtcagagtgtcgcttgtaccacctagtctgttcagtcaaacttacttctttatgaaatggtatggaattgtgtagGTAGTCAATGGACCTCGAGGACCTGTTGAATCTCCAAACGACATGTTTGAAGTATTCTATATTGATTATGGAAATCAAGAAGAAGTACCTTACTCTCAGC---
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ttcttatcacaatatagttgtatactcttctcgaattgtcattgtcagctcctggtcattctag---aaattttattgcgaagtcttcatgtcgt-ttgtgcagATTGTTAATGGACCTCGT---TCTGTTGAATCTCCGGACGACAAGTTTGAAGTATTCTATATTGACTATGGCAACCAAGAGGTGGTTACCTACAGTCGTTTAC
upper sequence: GLYMA05G33320.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G136296_T01 (Zea mays), 3'ss of exon 15
--------aatagggttgatgagatgcaaaatagtcagagtgtcgcttgtaccacctagtctgttcagtcaaacttacttctttatgaaatggtatggaattgtgtagGTAGTCAATGGACCTCGAGGACCTGTTGAATCTCCAAACGACATGTTTGAAGTATTCTATATTGATTATGGAAATCAAGAAGAAGTACCTTACTCTCAGC---
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cttatcacaacttagtt--ttatatactttatgcttgaattgccgttattagctcctggtc-gttctagaaattttattattgtct----tcatgtggt-ttgttcagATTGTTAATGGACCTCGC---TCTGTAGAATCTCTAAACGACAAGTTTGAAGTATTCTATATCGACTATGGCAACCAAGAGGTGGTTCCCTACAGTCGTCTAC
upper sequence: GLYMA05G33320.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv00s0283g00020.t01 (Vitis vinifera), 3'ss of exon 15
aatagggttga-tgagatgcaaaatagtcagagtgtcgcttgtaccacctagtctgttcagtcaaacttacttctttatgaaatggtatggaattgtgtagGTAGTCAATGGACCTCGAGGACCTGTTGAATCTCCAAACGACATGTTTGAAGTATTCTATATTGATTATGGAAATCAAGAAGAAGTACCTTACTCTCAGC
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agaagcaataacttatttctctaataattacaa-gaagtctatttcagttatattgtgttcctgtttcttagtttgaatctttctcatttgacatgtacagATTGTTAATGCACCTCGGGGGGCTGTTGAATCCCCAAAAGACAAATTTGAAGTGTTCTACATTGACTATGGAAATCAAGAAATTATTCCTTACAGTCAGTMapped 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|17400421|gb|BM177203.1|BM177203EST: ACACAGTCCTTTGTCTTTTTGGTGCTGATAAATCTTGGTACCGGGCAATG GTAGTCAATGGACCTCGAGGACCTGTTGAATCTCCAAACGACATGTTTGAA
genomic: ACACAGTCCTTTGTCTTTTTGGTGCTGATAAATCTTGGTACCGGGCAATGgtaagttctt ... aattgtgtagGTAGTCAATGGACCTCGAGGACCTGTTGAATCTCCAAACGACATGTTTGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acctagtctgttcagtcaaacttacttctttatgaaatggtatggaattgtgtagGTAGTCAATGGACCTCGAGGACCTGTTGAATCTCCAAACGACATGTTTGAAGTATTCTATATTGATTATGGAAATCAAGAAGAAGTACCTTACTCTCAGC
aacttac putative branch site (score: 2)
tttatgaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatagggttgatgagatgcaaaatagtcagagtgtcgcttgtaccacctagtctgttcagtcaaacttacttctttatgaaatggtatggaattgtgtagGTAGTCAATGGACCTCGAGGACCTGTTGAATCTCCAAACGACATGTTTGAAGTATTCTATATTGATTATGGAAATCAAGAAGAAGTACCTTACTCTCAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - gttgatg
- - - - - - - gatgcaa
- - - - - - - - - - - - - - - - - - gcttgta
- - - - - - - - - - - - - - - - - - - - - -ccaccta
- - - - - - - - - - - - - - - - - - - - - - - - - gtctgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggtatg