Sequence
atgc intronic sequence ATGC exonic sequence...tgtgactgactagctacgtataattttctctgaaaatattttatcctacagattttgtatttactagagcattctggttcttggtttgcctttaattcagGGGGAAGGATGAAGGAAACAGTGATGTAGAAGATCTTGTGAATAGTTTCTCAGCGCTTGAAGGGAAGGTCCTTGAACAATATACTTTTGCAAAG
Basic information
species | Glycine max |
transcript | GLYMA20G31490.2 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G31490.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G044681_T01 (Zea mays), 3'ss of exon 15
tgtgactgactagctacgtataattttctct---------------gaaaatattttatcctacagattttgtatttactagagcattctggttcttggtttg---cctttaattcagGGGGAAGGATGAAGGAAACAGTGATGTAGAAGATCTTGTGAATAGTTTCTCAGCGCTTGAAGGGAAGGTCCTTGAACAATATACTTTTGCAAAG
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-gtacctgatagcattcatgaaattttcgccctttccttcgctgtgggaaaccatgtacccattatagaagctgttctcaaggtatgtctaatccattcaatgaaaattttatcatagGAATAATGATGAGCGAAGTTCTGACATGCGAGATCTGATGACTTCTTTCTCTGCGCTTGAAGAGAAAGTCCTGGACCAATATACTTTTGCAAAG
upper sequence: GLYMA20G31490.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G050647_T01 (Zea mays), 3'ss of exon 15
tgtgactgactagctacgtataattttctct--------------gaaaatattttatc-ctacagattttgtatttactagagcattctggttcttggtttg--cctttaattcagGGGGAAGGATGAAGGAAACAGTGATGTAGAAGATCTTGTGAATAGTTTCTCAGCGCTTGAAGGGAAGGTCCTTGAACAATATACTTTTGCAAAG
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-gtacctgatagcattcatgaagtcttcgccctctctttgtgtgagaaagcatgtcctcattatagaagctgttctca--agtacgtctaatctattcaatgaaaattttgtcacagGAATAATGAGGAGCGAAGTTCTGACATGCGAGACCTGAGGACTTCTTTCTCTGCACTTGAAGAGAAAGTCCTGGACCAATATACTTTTGCAAAG
upper sequence: GLYMA20G31490.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv18s0072g00720.t01 (Vitis vinifera), 3'ss of exon 15
--tgtgactgact--agctacgtataattttctctgaaaatattttatcctacagattttgtatttactagagcattctggttcttggtttgcc--tttaattcagGGGGAAGGATGAAGGAAACAGTGATGTAGAAGATCTTGTGAATAGTTTCTCAGCGCTTGAAGGGAAGGTCCTTGAACAATATACTTTTGCAAAG
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catatttctcattttggcaacctcaagcttgc----agagtggattttactgtattatttatgcttg--aaaactctatgattaatgctaccctatcttggtgcagGGAAAGAGATGAAGGAGACAGTGACATACGAGATTTAGTAGTGTGTTTCTCTGGGCTTGAAGAGAAGGTCCTTGCACAGTATACTTTCGCAAAGMapped 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|17023282|gb|BM094316.1|BM094316EST: CTTTCTTATGAGTTGTATGACAAATACAGACACATCTGGCAGCATTCCAG GGGGAAGGATGAAGGAAACAGTGATGTA
genomic: CTTTCTTATGAGTTGTATGACAAATACAGACACATCTGGCAGCATTCCAGgtactttttc ... tttaattcagGGGGAAGGATGAAGGAAACAGTGATGTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctacagattttgtatttactagagcattctggttcttggtttgcctttaattcagGGGGAAGGATGAAGGAAACAGTGATGTAGAAGATCTTGTGAATAGTTTCTCAGCGCTTGAAGGGAAGGTCCTTGAACAATATACTTTTGCAAAG
ctttaat putative branch site (score: 4)
tttgccttt CT-rich tract
attttgtatttacta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtgactgactagctacgtataattttctctgaaaatattttatcctacagattttgtatttactagagcattctggttcttggtttgcctttaattcagGGGGAAGGATGAAGGAAACAGTGATGTAGAAGATCTTGTGAATAGTTTCTCAGCGCTTGAAGGGAAGGTCCTTGAACAATATACTTTTGCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
-gtgactg
- - - - - - - - - - - - - -ctctgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcattct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gttcttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtttgcc