Sequence
atgc intronic sequence ATGC exonic sequence...attcgaatttaaatataatgactaaaattgaaaaaagttgttgatagacaaaattaaatttagttgattatttgcttactttgaaagtcctgtgttgcagGCAGCAAGTTTTGGTGGCTCTAACATAGATCCAACTGCCTGGGAGGATAAAAAATGCAAAGGGGAATCAAGGTTTCCAGCTCAGGTAGTAGAATATAGGA
Basic information
species | Glycine max |
transcript | GLYMA19G25870.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G25870.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G011923_T01 (Zea mays), 3'ss of exon 3
---attcgaatttaaatataatgactaaaattgaaaaaagttgttgatagacaaaattaaatttagttgattatttgcttactttgaaagtcctgtgttgcagGCAGCAAGTTTTGGTGGCTCTAACATAGATCCAACTGCCTGGGAGGATAAAAAATGCAAAGGGGAATCAAGGTTTCCAGCTCAGGTAGTAGAATATAGGA
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tgattccgcaaatttgttgaagtttttaattccaatcacacttttggta--catatttaagaaactcttatctttttgttttttccaaacgaatttgct-tagGCTGCCAGTTTTGGTGGGTCTAATATTGATCCCACTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG----------------
upper sequence: GLYMA19G25870.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0068g02040.t01 (Vitis vinifera), 3'ss of exon 3
attcgaatttaaatataatgactaaaattgaaaaaagttgttgatagacaaaattaaatttagtt-gattatttgcttactttgaaagtc--ctgtgttgcagGCAGCAAGTTTTGGTGGCTCTAACATAGATCCAACTGCCTGGGAGGATAAAAAATGCAAAGGGGAATCAAGGTTTCCAGCTCAGGTAGTAGAATATAGGA
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---aaaatcttaaggttttatacatttatggttagttttgcgcatgaaagatattattattattttgaattcttaatagttctataatttgtttcttttacagGCAGCTAGTTTTGGGGGCTCTAACATTGATCCAACCGCATGGGAAGACAAAAAATGCAAAGGCGAATCGAGGTTTCCTGCTCAG----------------
upper sequence: GLYMA19G25870.2 (Glycine max), 3'ss of exon 3
lower sequence: PP1S4_323V6.1 (Physcomitrella patens), 3'ss of exon 2
--attcgaatttaaatataatgactaaaattgaaaaaagttgttgatagacaaaattaaatttagttgattatttgcttactttgaaagtcctgtgttgcagGCAGCAAGTTTTGGTGGCTCTAACATAGATCCAACTGCCTGGGAGGATAAAAAATGCAAAGGGGAATCAAGGTTTCCAGCTCAGGTAGTAGAATATAGGA
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caaggaggacctacttggacgtcctctgacctgtgggtggtgtcaaggacttgcttcagacgtaggttctcat--gtatggtgtttacattctgtatgacagGCAGCAAGTTTTGGAGGCTCTAACATAGATCCAACCGCCTGGGAAGACAAGAAATGTCGGGGAGAGTCAAGATTTCCTGCCCAG----------------
upper sequence: GLYMA19G25870.2 (Glycine max), 3'ss of exon 3
lower sequence: PP1S168_104V6.2 (Physcomitrella patens), 3'ss of exon 3
attcgaatttaaatataatgactaaaattgaaaaaagttgttg-atagacaaaattaaatttagttgattatttgcttactttgaaagtcctgtgttgcagGCAGCAAGTTTTGGTGGCTCTAACATAGATCCAACTGCCTGGGAGGATAAAAAATGCAAAGGGGAATCAAGGTTTCCAGCTCAGGTAGTAGAATATAGGA
| | || ||| | | | || | ||||| | || | | ||| | ||| | | | | | || | | ||||||||||||||||| ||||| |||||||| ||||| |||||||| || || ||||| ||| ||||| || ||||| ||||||
---agcaaggaagatcaatttcaacatctgtgag--gttgtaggatgtattatattcttctggtatgaggtgctaatgcatgtcgtcattctttatgacaggcagCAAGTTTTGGAGGCTCAAACATAGACCCAACCGCCTGGGAAGACAAGAAATGTCGAGGAGAATCGAGATTTCCTGCTCAG----------------
upper sequence: GLYMA19G25870.2 (Glycine max), 3'ss of exon 3
lower sequence: PP1S168_104V6.1 (Physcomitrella patens), 3'ss of exon 3
attcgaatttaaatataatgactaaaat-tgaaaaaagttgttg-atagacaaaattaaatttagttgattatttgcttactttgaaagtcctgtgttgcagGCAGCAAGTTTTGGTGGCTCTAACATAGATCCAACTGCCTGGGAGGATAAAAAATGCAAAGGGGAATCAAGGTTTCCAGCTCAGGTAGTAGAATATAGGA
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--gagaagcaaggaagatcaatttcaacatctgtgaggttgtaggatgtattatattcttctggtatgaggtgctaatgcatgtcgtcattctttatgacagGCAGCAAGTTTTGGAGGCTCAAACATAGACCCAACCGCCTGGGAAGACAAGAAATGTCGAGGAGAATCGAGATTTCCTGCTCAG----------------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|254346377|gb|GR856099.1|GR856099EST: ATACTACTCATCAGCTGCATGGTA-TTTTGAG GCAGCAAGTTTTGGTGGCTCTAACATAGATCCAACTGCCTGGGAGGATAAA
genomic: ATACTACTCATCAGCTGCATGGTATTTTTGAGgtaagctatt ... tgtgttgcagGCAGCAAGTTTTGGTGGCTCTAACATAGATCCAACTGCCTGGGAGGATAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agacaaaattaaatttagttgattatttgcttactttgaaagtcctgtgttgcagGCAGCAAGTTTTGGTGGCTCTAACATAGATCCAACTGCCTGGGAGGATAAAAAATGCAAAGGGGAATCAAGGTTTCCAGCTCAGGTAGTAGAATATAGGA
tgcttac putative branch site (score: 2)
aaattaaatttagttg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attcgaatttaaatataatgactaaaattgaaaaaagttgttgatagacaaaattaaatttagttgattatttgcttactttgaaagtcctgtgttgcagGCAGCAAGTTTTGGTGGCTCTAACATAGATCCAACTGCCTGGGAGGATAAAAAATGCAAAGGGGAATCAAGGTTTCCAGCTCAGGTAGTAGAATATAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA