Sequence
atgc intronic sequence ATGC exonic sequencegtttgatctatttcttcattcccttcataattagttgaaactgtttctccatgaatacagagttgcagctttaatagtattttatttatgacagAAAACAGCATGGCTTGCTACATTTTACATGTGTATACCAGCTGGGACTGCTCTGGGCTATGTTTATGGTGGAATT
Basic information
species | Glycine max |
transcript | GLYMA09G33680.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G33680.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os04g44430.1 (Oryza sativa), 3'ss of exon 4
--gtttgatctatttcttcattcccttcataatt--agttgaaactgtttct--ccatgaatacagagttgcagctttaatagtattttatttatgacagAAAACAGCATGGCTTGCTACATTTTACATGTGTATACCAGCTGGGACTGCTCTGGGCTATGTTTATGGTGGAATT
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ctatgcatattacttggaggttctgtttttaattgtacttgttttcatgtctagtctctagtgtcaaccaggaacttacttgctactcctatgttaccagAAAACAGCATGGCTTGCTATGTTCTACATGTGTATACCCACTGGAATAGCGGTTGGCTATGTTTATGGTGGTTTG
upper sequence: GLYMA09G33680.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G164743_T01 (Zea mays), 3'ss of exon 5
----gtttgatctatttcttcattcccttcataattagttgaaactgtttctccatgaatacagagttgcagctttaatagtatt---ttatttatgacagAAAACAGCATGGCTTGCTACATTTTACATGTGTATACCAGCTGGGACTGCTCTGGGCTATGTTTATGGTGGAATT
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tttgcgacgacactgtgctgcatttttttgctaat-ggttactgttatgcataattcgtcatgtcttttatgagccaatgatttctacttattgttaccagAAAACAGCGTGGCTTGGTATGTTCTACATGTGTATACCAACTGGGATTGCATTAGGCTATGTTTATGGCGGACTG
upper sequence: GLYMA09G33680.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G062024_T01 (Zea mays), 3'ss of exon 5
--gtttgatctatttcttcattcccttcataattagttgaaactgtttctccatgaatacagagttgc--agctttaatagtatt---ttatttatgacagAAAACAGCATGGCTTGCTACATTTTACATGTGTATACCAGCTGGGACTGCTCTGGGCTATGTTTATGGTGGAATT
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ttctttcatgaagctatgc-tacaatttttcgctagtggttactgttatttatagtatgtcatgtctcttacggccaatgacttctacttactgttaccagAAAACAGCATGGCTTGGTATGTTCTACATGTGTATACCAACTGGGATAGCATTAGGCTATGTTTATGGCGGACTG
upper sequence: GLYMA09G33680.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv07s0205g00120.t01 (Vitis vinifera), 3'ss of exon 5
gtttgatctatttc-ttcattcccttcataattagttgaaactgtttctccatgaatacagagttgcagctttaatagtattttatttatga-----cagAAAACAGCATGGCTTGCTACATTTTACATGTGTATACCAGCTGGGACTGCTCTGGGCTATGTTTATGGTGGAATT
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gttctaactgccttatttgaatttttaacagagcattttatttcttctttgctgttttttggtcttttattttattcattttttattctttgtcatgcagAAAACAGCCTGGCTTGCAATGTTTTACATGTGTATACCAACTGGGATCGCTCTAGGCTATGTTTATGGTGGTTTTMapped 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|298194152|gb|HO040800.1|HO040800EST: TCATAAGTCTTGCCGCACCATTTATAGATGACAATGCCCTTGATGCACAG AAAACAGCATGGCTTGCTACATTTTA
genomic: TCATAAGTCTTGCCGCACCATTTATAGATGACAATGCCCCTGATGCACAGgtttgatcta ... tttatgacagAAAACAGCATGGCTTGCTACATTTTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actgtttctccatgaatacagagttgcagctttaatagtattttatttatgacagAAAACAGCATGGCTTGCTACATTTTACATGTGTATACCAGCTGGGACTGCTCTGGGCTATGTTTATGGTGGAATT
ctttaat putative branch site (score: 4)
ttttattt putative PPT
tttaatagtattttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgatctatttcttcattcccttcataattagttgaaactgtttctccatgaatacagagttgcagctttaatagtattttatttatgacagAAAACAGCATGGCTTGCTACATTTTACATGTGTATACCAGCTGGGACTGCTCTGGGCTATGTTTATGGTGGAATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA