Sequence
atgc intronic sequence ATGC exonic sequence...ggatctcaggctattctttttgcaacaaggttcacttagtatggtacagaatataatgatttgaattactttaactcatttattgctcttctttctgcagTTTGTTGTTAAAAAAGGCCGTGTTTTGACCCCTCATGCTGATTACTGTCTTCCTGGCATTACTCGTGCAACT
Basic information
species | Glycine max |
transcript | GLYMA19G42530.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G42530.1 (Glycine max), 3'ss of exon 15
lower sequence: LOC_Os03g24460.3 (Oryza sativa), 3'ss of exon 15
-----------------ggatctcaggctattctt---tttgcaacaaggttcacttagtatggtacagaatataat--gatttga---attactttaactcatt-----tattgctcttctttctgcagTTTGTTGTTAAAAAAGGCCGTGTTTTGACCCCTCATGCTGATTACTGTCTTCCTGGCATTACTCGTGCAACT----------------------------
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gtaagtgtacatggctgttatcattaacatatctcgaatttgcctcaatattt-tttattgaaggagagagtttacctcaattttattcataacttttgttttctaaaaatgccactgtgttaattgcagTTTATGGTTAAGAAGGGCATTGTGTTGACACCTCATGCTGAGTACTGCCTTCCAGGCATTACGCGTGCAACTGTAAGTCTAATCAGGTTCCAGTTGGAAA
upper sequence: GLYMA19G42530.1 (Glycine max), 3'ss of exon 15
lower sequence: LOC_Os03g24460.2 (Oryza sativa), 3'ss of exon 15
-----------------ggatctcaggctattctt---tttgcaacaaggttcacttagtatggtacagaatataa--tgatttga---attactttaactcatt-----tattgctcttctttctgcagTTTGTTGTTAAAAAAGGCCGTGTTTTGACCCCTCATGCTGATTACTGTCTTCCTGGCATTACTCGTGCAACT
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gtaagtgtacatggctgttatcattaacatatctcgaatttgcctcaatattt-tttattgaaggagagagtttacctcaattttattcataacttttgttttctaaaaatgccactgtgttaattgcagTTTATGGTTAAGAAGGGCATTGTGTTGACACCTCATGCTGAGTACTGCCTTCCAGGCATTACGCGTGCAACT
upper sequence: GLYMA19G42530.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv14s0128g00100.t01 (Vitis vinifera), 3'ss of exon 25
ggatctcaggctattctttttgcaacaaggttcacttagtatggtacagaatataatgatttgaattactttaactcatt--tattgctcttcttt---ctgcagTTTGTTGTTAAAAAAGGCCGTGTTTTGACCCCTCATGCTGATTACTGTCTTCCTGGCATTACTCGTGCAACT
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----ctttcgctctcatcattgaaaagaagcagtcccttgaagattcattg-attttgactgtagacttcctgactgaaaaatattcctctgtttcatattgcagTTCTTAGTGAAGAAAGGTCATGTTCTGACACCTCATGCTGATTACTGCCTTCCTGGGATAACTCGAGCTACTMapped 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|23064265|gb|BU579038.1|BU579038EST: TCATGCTCGACCAAGATGGTTATTTATCAGAAACCAATGCAACTAACATT TTTGTTGTTAAAAAAGGCCGTGTTTTGACCCCTCATGCTGATTACTGTCTT
genomic: TCATGCTCGACCAAGATGGTTATTTATCAGAAACCAATGCAACTAACATTgtatgtcctc ... ctttctgcagTTTGTTGTTAAAAAAGGCCGTGTTTTGACCCCTCATGCTGATTACTGTCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acagaatataatgatttgaattactttaactcatttattgctcttctttctgcagTTTGTTGTTAAAAAAGGCCGTGTTTTGACCCCTCATGCTGATTACTGTCTTCCTGGCATTACTCGTGCAACT
ctttaac putative branch site (score: 3)
ctcatttattgctctt CT-rich tract
atataatgatttgaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggatctcaggctattctttttgcaacaaggttcacttagtatggtacagaatataatgatttgaattactttaactcatttattgctcttctttctgcagTTTGTTGTTAAAAAAGGCCGTGTTTTGACCCCTCATGCTGATTACTGTCTTCCTGGCATTACTCGTGCAACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - tgcaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatttg