Sequence
atgc intronic sequence ATGC exonic sequencegtacgttagtttacgaaaaaaattaaatttattgcagtttttttatatatttaatttaattttttttattttgtatgtgaatttgtgaacgtgaagGTTGGAGCAAGAATCGGGATTTTTCTTTAACATGAGGTATTTTGAGGATATGGTGACGAATGGGGAGTGGGATGAGGTGGAGAAGTACTTGTCTGGTTTT
Basic information
species | Glycine max |
transcript | GLYMA17G12110.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G12110.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv11s0016g05620.t01 (Vitis vinifera), 3'ss of exon 2
-----------------------------gtacgttagt-ttacgaaaaaaattaaatttattgcagtttttttatatatt--taatttaattttttttattttgtatgtgaatttgtgaacgtgaagGTTGGAGCAAGAATCGGGATTTTTCTTTAACATGAGGTATTTTGAGGATATGGTGACGAATGGGGAGTGGGATGAGGTGGAGAAGTACTTGTCTGGTTTT
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gtacggcaaaattttctctattttcccttatttgtcattattgcgactgactctaatattttcaaattttcgtgaggtgctgttgaattgatttgttacttattactatttttttttggggtgtggagATTGGAGCAAGAATCAGGTTTTTTCTTTAACATGAGGTATTTTGAGGAAACGGTGACCAATGGTGAGTGGGATGACGTTGAGAAGTATCTGTCAGGATTC
upper sequence: GLYMA17G12110.2 (Glycine max), 3'ss of exon 2
lower sequence: EFJ37833 (Selaginella moellendorffii), 3'ss of exon 1
gtacgttagtttacgaaaaaaattaaatttattgcagtttttttatatatttaatttaattttttttattttgtatgtgaatt-tgtgaacgtga-agGTTGGAGCAAGAATCGGGATTTTTCTTTAACATGAGGTATTTTGAGGATATGGTGACGAATGGGGAGTGGGATGAGGTGGAGAAGTACTTGTCTGGTTTT
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--------------------------------------gtgagaagatttgtggtttg-ttcttgttggtggatgtaagtgttgtgtgattttggcagGCTGGAGCAAGAATCTGGCTTCTACTTCAACATGAAGTACTTTGAAGATCAGGTCCAGAATGGGGAGTGGGACGAGGTGGAGAGGTACTTGTCTGGCTTC
upper sequence: GLYMA17G12110.2 (Glycine max), 3'ss of exon 2
lower sequence: EFJ36405 (Selaginella moellendorffii), 3'ss of exon 5
gtacgttagtttacgaaaaaaattaaatttattgcagtttttttatatatttaatttaattttttttattttgtatgtgaatt-tgtgaacgtga-agGTTGGAGCAAGAATCGGGATTTTTCTTTAACATGAGGTATTTTGAGGATATGGTGACGAATGGGGAGTGGGATGAGGTGGAGAAGTACTTGTCTGGTTTT
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--------------------------------------gtgaggagatttgtggttta-ttcttgttggtggatgtaagtgttgtgtgattttggcagGCTGGAGCAAGAATCTGGCTTCTTCTTCAACATGAAGTACCTTGAAGATCAGGTCCAGAATGGGGAGTGGGACGAGGTGGAGAGGTACTTGTCTGGCTTC
upper sequence: GLYMA17G12110.2 (Glycine max), 3'ss of exon 2
lower sequence: EFJ35798 (Selaginella moellendorffii), 3'ss of exon 1
gtacgttagtttacgaaaaaaattaaatttattgcagtttttttatatatttaatttaattttttttattttgtatgtgaatt-tgtgaacgtga-agGTTGGAGCAAGAATCGGGATTTTTCTTTAACATGAGGTATTTTGAGGATATGGTGACGAATGGGGAGTGGGATGAGGTGGAGAAGTACTTGTCTGGTTTT
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--------------------------------------gtgaggagatttgtggtttg-ttcttgttggtggatgtaagtgttatgtgattttggcagGCTGGAGCAAGAATCTGGCTTCTTCTTCAACATGAAGTACCTTGAAGATCAGGTCCAGAATGGGGAGTGGGACGAGGTGGAGAGGTACTTGTCTGGCTTC
upper sequence: GLYMA17G12110.2 (Glycine max), 3'ss of exon 2
lower sequence: EFJ32018 (Selaginella moellendorffii), 3'ss of exon 1
gtacgttagtttacgaaaaaaattaaatttattgcagtttttttatatatttaatttaattttttttattttgtatgtgaatt-tgtgaacgtga-agGTTGGAGCAAGAATCGGGATTTTTCTTTAACATGAGGTATTTTGAGGATATGGTGACGAATGGGGAGTGGGATGAGGTGGAGAAGTACTTGTCTGGTTTT
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--------------------------------------gtgagaagatttgtggtttg-ttcttgttggtggatgtaagtgttgtgcgattttggcagGCTGGAGCAAGAATCTGGCTTCTACTTCAACATGAAGTACTTTGAAGATCAGGTCCAGAATGGGGAGTGGGACGAGGTGGAGAGGTACTTGTCTGGCTTCMapped 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|192308621|gb|FG999716.1|FG999716EST: CTCATACTTCAGTTTCTCGATGAAGAGAAATTTAAGGAGACTGTTCACAA GTTGGAGCAAGAATCGGGATTTTTCTTTAACATGAGGTATTTTGAGGATAT
genomic: CTCATACTTCAGTTTCTCGATGAAGAGAAATTTAAGGAGACTGTTCACAAgtacgttagt ... gaacgtgaagGTTGGAGCAAGAATCGGGATTTTTCTTTAACATGAGGTATTTTGAGGATAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttatatatttaatttaattttttttattttgtatgtgaatttgtgaacgtgaagGTTGGAGCAAGAATCGGGATTTTTCTTTAACATGAGGTATTTTGAGGATATGGTGACGAATGGGGAGTGGGATGAGGTGGAGAAGTACTTGTCTGGTTTT
atttaat putative branch site (score: 4)
atatttaatttaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgttagtttacgaaaaaaattaaatttattgcagtttttttatatatttaatttaattttttttattttgtatgtgaatttgtgaacgtgaagGTTGGAGCAAGAATCGGGATTTTTCTTTAACATGAGGTATTTTGAGGATATGGTGACGAATGGGGAGTGGGATGAGGTGGAGAAGTACTTGTCTGGTTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT