Sequence
atgc intronic sequence ATGC exonic sequence...tcctatttacaggaactaaaaatatatttcccaaattattattattttttattattattattgtgcagtttattatgtttaatgtcttatgggatcacagATTCATCTGGATCACAAGCACATGGGATTGGGTGGAGATGATAGTTGGTCACCATGTGTCCACAAACAGTATTTGATTCCTCCTGTGCCATACTCATTCT
Basic information
species | Glycine max |
transcript | GLYMA15G37670.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G37670.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv13s0067g03000.t01 (Vitis vinifera), 3'ss of exon 16
--tcctatttacagg-aactaaaaatatatttcccaaattattattattttttattattattattgtgcagtttattatgtt-taatgtcttatgggatcacagATTCATCTGGATCACAAGCACATGGGATTGGGTGGAGATGATAGTTGGTCACCATGTGTCCACAAACAGTATTTGATTCCTCCTGTGCCATACTCATTCT
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catgctacctgcctgcagctttccctgttcttgatttgttcct-tggcatatcattgttatttccagtcaccttgttatattgttatggcg---gtgttcccagGTGCATCTGGACCACAAGCACATGGGTTTGGGTGGTGATGATAGCTGGTCTCCCTGTGTCCATGAGAAATACCTGATTCCAGCGGTGCCATACTCATTCT
upper sequence: GLYMA15G37670.1 (Glycine max), 3'ss of exon 11
lower sequence: PP1S130_43V6.1 (Physcomitrella patens), 3'ss of exon 17
---tcctatttacaggaactaaaaatatatttcccaaattattattattttttattattattattgtgcagtttattatgtttaatgtcttatgggatcacagATTCATCTGGATCACAAGCACATGGGATTGGGTGGAGATGATAGTTGGTCACCATGTGTCCACAAACAGTATTTGATTCCTCCTGTGCCATACTCATTCT
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caagcttctccgtagtctgcttccgttgtcctacgaacttctcgactactttcgtaatatgtaaagaatgtcttaataacttttctaacctgt---tttgcagGTTCATCTGGATCACAAGCACATGGGCATCGGCGGTGACGACAGCTGGACACCATGTGTGCACCCCCAGTACCTTTTGCCTCCAGAATTATACCATTTCT
upper sequence: GLYMA15G37670.1 (Glycine max), 3'ss of exon 11
lower sequence: EFJ13378 (Selaginella moellendorffii), 3'ss of exon 16
tcctatttacaggaactaaaaatatatttcccaaattattattattttttattattattattgtgcagtttattatgtttaatgtcttatgggatcacagATTCATCTGGATCACAAGCACATGGGATTGGGTGGAGATGATAGTTGGTCACCATGTGTCCACAAACAGTATTTGATTCCTCCTGTGCCATACTCATTCT-
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-----------------------gtatcccccaga--gctatc--ttttcaccttttgtttcttactgtttgtt---ttaaacgattatcatacttgcagGTGCACCTTGATCACAAGCACATGGGTTTAGGTGGCGATGATAGTTGGAGTCCCTGCGTCCACGATGAGTACCTCGT-CTTACCACGAAATTACGAGTTTG
upper sequence: GLYMA15G37670.1 (Glycine max), 3'ss of exon 11
lower sequence: EFJ11904 (Selaginella moellendorffii), 3'ss of exon 16
tcctatttacaggaactaaaaatatatttcccaaattattattattttttattattattattgtgcagtttattatgtttaatgtcttatgggatcacagATTCATCTGGATCACAAGCACATGGGATTGGGTGGAGATGATAGTTGGTCACCATGTGTCCACAAACAGTATTTGATTCCTCCTGTGCCATACTCATTCT-
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-----------------------gtatcccccagagc----tttcttttcaccttttgtttcttactgtttgtt----ttaatactt---------gcagGTGCACCTTGATCACAAGCACATGGGTTTAGGTGGCGATGATAGTTGGAGTCCCTGCGTCCACGATGAGTACCTCGT-CTTACCACGAAATTACGAGTTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttattattattattgtgcagtttattatgtttaatgtcttatgggatcacagATTCATCTGGATCACAAGCACATGGGATTGGGTGGAGATGATAGTTGGTCACCATGTGTCCACAAACAGTATTTGATTCCTCCTGTGCCATACTCATTCT
gtttaat putative branch site (score: 4)
tttattatgtttaatg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcctatttacaggaactaaaaatatatttcccaaattattattattttttattattattattgtgcagtttattatgtttaatgtcttatgggatcacagATTCATCTGGATCACAAGCACATGGGATTGGGTGGAGATGATAGTTGGTCACCATGTGTCCACAAACAGTATTTGATTCCTCCTGTGCCATACTCATTCT
- - - - - - - - -aaaaata
- - - - - - - - - - - - - - tcccaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcagtt