Sequence
atgc intronic sequence ATGC exonic sequence...ttattaaaatatttgtgattttgtaagtgcttttgagtgatggttaactgattgtcaccttccatttgctaaatttgcttccatttggttgcatttgtagGCTATTTTTTCAGCTATTGCCAACAATGGCTGATGGTGAATCTGACAAGAACATTGAGATATGGAAGATCAAGAAATTGATCAGAGCATTGGAATCTGCA
Basic information
species | Glycine max |
transcript | GLYMA19G28310.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G28310.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv18s0001g12240.t01 (Vitis vinifera), 3'ss of exon 2
------------ttattaaaatatttgtgattttgtaagtgcttttgagtgatggttaactgattgtcaccttccatttgctaaatttgcttccatttggttgcatttgtagGCTATTTTTTCAGCTATTGCCA-----ACAATGGCTGATGGT---GAATCTGACAAGAACATTGAGATATGGAAGATCAAGAAATTGATCAGAGCATTGGAATCTGCA
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tcatgcctttttttttaaaggaatctgcaccttttagttttcttttctcctgtgcataatcaaa---ctcccagaattttcaaagtttattttttctttgcagGTAAATCAGTTAGCTTCCACAGTTAGTACCGTACTTACAATGGCAGATGGTCATGAAACAGATAAGAACATTGAGATATGGAAGATCAAAAAGTTGATCA-----------------
upper sequence: GLYMA19G28310.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv18s0041g00730.t01 (Vitis vinifera), 3'ss of exon 1
-------ttattaaaatatttgtga----ttttgtaagtgcttttgagtgatgg--ttaactgattgtcaccttccatttgctaaatttgcttccatttggttgcatttgtagGCTATTTTTTCAGCTATTGCCA------ACAATGGCTGATGGT---GAATCTGACAAGAACATTGAGATATGGAAGATCAAGAAATTGATCAGAGCATTGGAATCTGCA
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tcacctcatatcaggatattaagcaccatttttagttttattttttcattatggaactactagattcagaatttgagtttat--attctgccatc-tttgcagGCAATTTTCATTAATTTCCTCAGTCTGTACTATATTGCACAATGGCTGATGGTCATGAAACAGATAAGAACATTGAGATATGGAAGATCAAGAAGTTGAT-------------------Mapped 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|5175313|gb|AI759646.1|AI759646EST: CCCTAGGCCGTGTGCGAGAGTCTGATTCTTTCACCCAAACATACACAGAG GCTATTTTTTCAGCTATTGCCAACAATGGCTGATGGTGAATCTGACAAGAA
genomic: CCCTAGGCCGTGTGCGAGAGTCTGATTCTTTCACCCAAACATACACAGAGgtgactacat ... gcatttgtagGCTATTTTTTCAGCTATTGCCAACAATGGCTGATGGTGAATCTGACAAGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aactgattgtcaccttccatttgctaaatttgcttccatttggttgcatttgtagGCTATTTTTTCAGCTATTGCCAACAATGGCTGATGGTGAATCTGACAAGAACATTGAGATATGGAAGATCAAGAAATTGATCAGAGCATTGGAATCTGCA
tgctaaa putative branch site (score: 2)
taaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttattaaaatatttgtgattttgtaagtgcttttgagtgatggttaactgattgtcaccttccatttgctaaatttgcttccatttggttgcatttgtagGCTATTTTTTCAGCTATTGCCAACAATGGCTGATGGTGAATCTGACAAGAACATTGAGATATGGAAGATCAAGAAATTGATCAGAGCATTGGAATCTGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - gcttttg
- - - - - - - - - - - - - - - - - - gtgatgg
- - - - - - - - - - - - - - - - - - - - - - - -ctgattg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcttcc