Sequence
atgc intronic sequence ATGC exonic sequencegtaagaatctatagacactttttctcatgggaaagagtttcaagtttgatttgacttggtgatataaattttttaactatccaaaattttcacggattaactatcctcatgtagATTCTTGGGAGTGGCATGTCAAACAAAATGTGGGATGTTCTAGTTGAGCATGCAAAGACTTGTGTTCTTAGTGGAAAACTCTATGTATACTATCCCGATG
Basic information
species | Glycine max |
transcript | GLYMA15G07330.2 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G07330.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os02g35470.3 (Oryza sativa), 3'ss of exon 6
gtaagaatctatagacactttttctcatgggaaagagtttcaagtttgatttgacttggtgatataaattttttaactatccaaaattttcacggattaactatcctcatgtagATTCTTGGGAGTGGCATGTCAAACAAAATGTGGGATGTTCTAGTTGAGCATGCAAAGACTTGTGTTCTTAGTGGAAAACTCTATGTATACTATCCCGATG
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--------------------------------gtaagttctacaattgttgttaataggt--tgtaattaatgtagtt-taattgatgatcaaatacct-cttttttcttttagATTCTTGGCAGTGGAATGTCAAATAAGATGTGGGAAAGCCTTGTTGAGCATGCAAAGACTTGTGTCTTAAGTGGAAAGCACTATGTATATTATGCTATTG
upper sequence: GLYMA15G07330.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os02g08120.1 (Oryza sativa), 3'ss of exon 6
gtaagaatctatagacactttttctcatgggaaagagtttcaagtttgatttgacttggtgatataaattttttaactatccaaaattttcacggattaactatcctcatgtagATTCTTGGGAGTGGCATGTCAAACAAAATGTGGGATGTTCTAGTTGAGCATGCAAAGACTTGTGTTCTTAGTGGAAAACTCTATGTATACTATCCCGATG
| |||| | | | ||| | | | | | |||||| | | || | || || | | || |||| ||||| ||||| ||||| || || ||||||||| |||| || || ||||||||||||||||| | ||||||||| || |||| ||| | || |
------------------------------gtaagattatt---tcctattcagcatttt--tcttctttttttcttttgtttgagttctaacatata---tgttctgtcccagATCCTTGGAAGTGGTATGTCTAATAAGATGTGGGATATTCTTGTCGAACATGCAAAGACTTGTGTCTTAAGTGGAAAATATTACATATATTATTCAGACG
upper sequence: GLYMA15G07330.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os04g36660.1 (Oryza sativa), 3'ss of exon 6
gtaagaatctatagacactttttctcatgggaaagagtttcaagtttgatttgacttggtgatataaattttttaactatccaaaattttcacggattaactatcctcatgt----agATTCTTGGGAGTGGCATGTCAAACAAAATGTGGGATGTTCTAGTTGAGCATGCAAAGACTTGTGTTCTTAGTGGAAAACTCTATGTATACTATCCCGATG
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--------------gtaagtcttattat---------tcctctttgtaacttatattaagaattttgtttctttaa--aactaaaattt----ggttttcttcttctgatattttcagATTCTTGGCAGTAACATGTCAAATAAGATGTGGGAAAGTCTTGTTGAGCATGCGAAGACATGTGTTTTGAGTGGCAAACACTATATATATTACTCAAGCG
upper sequence: GLYMA15G07330.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G451882_T01 (Zea mays), 3'ss of exon 6
gtaagaatctatagacactttttctcatgggaaagagtttcaagtttgatttgacttggtgatataaattttttaactatccaaaattttcacggatta-actatcctcatgtagATTCTTGGGAGTGGCATGTCAAACAAAATGTGGGATGTTCTAGTTGAGCATGCAAAGACTTGTGTTCTTAGTGGAAAACTCTATGTATACTATCCCGATG
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----------------gtaagttcgtatgtgggtgtgttattaacttactattatt--atactttca--tttttatgtgtttcagtttatgactattaatgctcttctgtgatagATACTTGGAAGTGGTATGTCCAACAAAATGTGGGATGCCCTTGTGGAACATGCAAAGACTTGTGTCTTAAGTGGGAAATATTACATATACTATTCTGATG
upper sequence: GLYMA15G07330.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G113453_T01 (Zea mays), 3'ss of exon 6
gtaagaatctatagacactttttctcatgggaaagagtttcaagtttgatttgacttg--gtgatataaattttttaactatccaaaattttcacggattaactatcctcatgtagATTCTTGGGAGTGGCATGTCAAACAAAATGTGGGATGTTCTAGTTGAGCATGCAAAGACTTGTGTTCTTAGTGGAAAACTCTATGTATACTATCCCGATG
| || | | | || ||| ||| | | | | || | | | | | | || || | | |||||||| || ||||| |||||||| || |||||||| || ||||||||||||||||| ||||| | |||||||| | |||||||||||| | |
-----------------------------gtaagttctatgatacctgtttttgcttactatattgtgatttatggtattccctatatggtttgacagcccttgttctttttatagATTCTGGGCAGTGGAATGTCAAATAAGATGTGGGACAGCCTTGTTGAGCATGCAAAGACATGTGTCTTAAGTGGAAAGCATTATGTATACTATGCTAGAG
upper sequence: GLYMA15G07330.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G054109_T01 (Zea mays), 3'ss of exon 6
gtaagaatctatagacactttttctcatgggaaagagtttcaagtttgatttgacttggtgatataaattttttaactatccaaaattttcacggattaactatcctcatgtagATTCTTGGGAGTGGCATGTCAAACAAAATGTGGGATGTTCTAGTTGAGCATGCAAAGACTTGTGTTCTTAGTGGAAAACTCTATGTATACTATCCCGATG
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--------------------------------gtaagttcta----tgataccttattgtgatttatggtatttc-ctatatga---tttgacaccccttgttcttttttgtagATTCTGGGCAGTGGAATGTCAAATAAGATGTGGGACAGCCTTGTTGATCATGCAAAGACGTGTGTCTTAAGTGGAAAGCATTATGTATACTATGCTAGAG
upper sequence: GLYMA15G07330.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G018837_T01 (Zea mays), 3'ss of exon 6
gtaagaatctatagacactttttctcatgggaaagagtttcaagtttgatttgacttggtgatataaattttttaactatccaaaattttcac-ggattaactatcctcatgtagATTCTTGGGAGTGGCATGTCAAACAAAATGTGGGATGTTCTAGTTGAGCATGCAAAGACTTGTGTTCTTAGTGGAAAACTCTATGTATACTATCCCGATG
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--------------------------gtaagtttgtgtgtgcagtgttatt-aacttattcttactatactttcatgtgttttggttgctgattataaatgctattctgtgatagATACTTGGAAGTGGTATGTCCAACAAAATGTGGGAAACCCTTGTGGAGCATGCAAAGACTTGTACCTTAAGTGGAAAATATTACATATACTATTCTGATG
upper sequence: GLYMA15G07330.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv00s0181g00220.t01 (Vitis vinifera), 3'ss of exon 7
gtaagaatctatagacactttttctcatgggaaagagtttcaagtttgatttgacttggtgatataaattttttaactatccaaaattttcacggattaactatc--ctcatgtagATTCTTGGGAGTGGCATGTCAAACAAAATGTGGGATGTTCTAGTTGAGCATGCAAAGACTTGTGTTCTTAGTGGAAAACTCTATGTATACTATCCCGATG
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------------------------------gtaagaatgtacattttgttgtcatttcagaatttgaatccgtctattgt----aatttttatttatttgtctccaattgttgtagATTCTTGGAAGTGGCATGTCAAATAAGATGTGGGATGTTCTTGTGGAGCATGCAAAAACTTGTGTTCTAAGTGGGAAACTTTATGTTTACTATCCTGATG
upper sequence: GLYMA15G07330.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ34469 (Selaginella moellendorffii), 3'ss of exon 5
gtaagaatctatagacactttttctcatgggaaagagtttcaagtttgatttgacttggtgatataaattttttaactatccaaaattttca-cggat-taactatcctcatgtagATTCTTGGGAGTGGCATGTCAAACAAAATGTGGGATGTTCTAGTTGAGCATGCAAAGACTTGTGTTCTTAGTGGAAAACTCTATGTATACTATCCCGATG
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--------------------------------------------------gtaagtaatgaaagttagttttttctttctctctctctgtcagctcatgtagttggtctggcgcagATTCTTGGAAGTGGCATGTCAAATAAGATGTGGGAAGGAACAGTGGAGCATGCTAAAACGTGCGTCCTCAGCGGAAAGCTGTATGTCTATTATGCCGACG
upper sequence: GLYMA15G07330.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ05811 (Selaginella moellendorffii), 3'ss of exon 5
gtaagaatctatagacactttttctcatgggaaagagtttcaagtttgatttgacttggtgatataaattttttaactatccaaaattttcacggattaactatcctcatgtagATTCTTGGGAGTGGCATGTCAAACAAAATGTGGGATGTTCTAGTTGAGCATGCAAAGACTTGTGTTCTTAGTGGAAAACTCTATGTATACTATCCCGATG
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--------------------------------gtaagtaatgagtttttttctctctctttctctctctttctt------tcag----ctcatg---tagttggtctggcgcagATTCTTGGAAGTGGCATGTCAAATAAGATGTGGGAAGGAACAGTGGAGCATGCTAAAACGTGCGTCCTCAGCGGAAAGCTGTATGTCTATTATGCCGACGMapped 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|4260437|gb|AI416933.1|AI416933EST: TTGAAGATGTCGTACAACTTGTGGTCAGAGATCCACAGAGATTGCGGAAT ATTCTTGGGAGTGGCATGTCAAACAAAATGTGGGATGTTCTAGTTGAGCAT
genomic: TTGAAGATGTCGTACAACTTGTGGTCAGAGATCCACAGAGATTGCGGAATgtaagaatct ... cctcatgtagATTCTTGGGAGTGGCATGTCAAACAAAATGTGGGATGTTCTAGTTGAGCAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgatataaattttttaactatccaaaattttcacggattaactatcctcatgtagATTCTTGGGAGTGGCATGTCAAACAAAATGTGGGATGTTCTAGTTGAGCATGCAAAGACTTGTGTTCTTAGTGGAAAACTCTATGTATACTATCCCGATG
gattaac putative branch site (score: 2)
ctatcctc CT-rich tract
taaattttttaactat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagaatctatagacactttttctcatgggaaagagtttcaagtttgatttgacttggtgatataaattttttaactatccaaaattttcacggattaactatcctcatgtagATTCTTGGGAGTGGCATGTCAAACAAAATGTGGGATGTTCTAGTTGAGCATGCAAAGACTTGTGTTCTTAGTGGAAAACTCTATGTATACTATCCCGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA