Sequence
atgc intronic sequence ATGC exonic sequencegtaactgccacaacacaaaaccatgtcactgtgatatataacagggaatgttattggaaggcttcatcttaccgacattataatacatatggcctaaattattgttatgcagGATATCAAAAGACTTTTCCCATCTGACTATAATCCATTCTACGCTGGATTTGGCAATAGAGATACAGATGAACTTAGTTACAGAAAGATTGGAGTCCCGA
Basic information
species | Glycine max |
transcript | GLYMA13G19730.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G19730.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os05g38710.1 (Oryza sativa), 3'ss of exon 8
gtaactgccacaacacaaaaccatgtcactgtgatatataacagggaatgttattgg---aaggcttcatcttaccgacattataa-tacatatggcctaaattattgttat---gcagGATATCAAAAGACTTTTCCCATCTGACTATAATCCATTCTACGCTGGATTTGGCAATAGAGATACAGATGAACTTAGTTACAGAAAGATTGGAGTCCCGA
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-------------------acaatcttagaaacacacattttagattcttccatagacctgaaactccatgttggtatcacagcaggctcttgaaattctaatttttgttctttggcagGACATTAAAGCACTTTTCCCTTCTGATTACAATCCATTTTATGCTGGATTTGGCAACAGAGATACAGATGAGCTTAGTTACAAAAAGATGGGAATTCCAA
upper sequence: GLYMA13G19730.1 (Glycine max), 3'ss of exon 8
lower sequence: AT3G09560.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaactgccacaacacaaaaccatgtcactgtgatatataacagggaatgttattggaaggcttcatcttaccgacattataatacatatggcctaaattattgttatgcagGATATCAAAAGACTTTTCCCATCTGACTATAATCCATTCTACGCTGGATTTGGCAATAGAGATACAGATGAACTTAGTTACAGAAAGATTGGAGTCCCGA
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--------------gtaaaagtttttctcatttttttctgtgaactaataatag-agaacacttaaaaccagcggcttagatatgaacaacttttacaattgtaatatgcagGATATCAGGAAACTCTTCCCAACGGATTACAACCCGTTCTATGCCGGATTTGGAAATAGAGACACAGATGAGCTGAGTTACAGAAAACTCGGAATCCCAA
upper sequence: GLYMA13G19730.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv08s0040g02800.t01 (Vitis vinifera), 3'ss of exon 7
gtaactgccacaacacaaaaccatgtcactgtgatatataacagg-gaatgttattggaaggcttcatcttaccgaca---ttataatacatatggcctaaattattgttatgcagGATATCAAAAGACTTTTCCCATCTGACTATAATCCATTCTACGCTGGATTTGGCAATAGAGATACAGATGAACTTAGTTACAGAAAGATTGGAGTCCCGA
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gttagtatgagaaggccgaacctcttaactgt-atgtggaatggatgaattttagtaaaatgctcattctttcaaacaatttcataatttatatt-ttaaaattatgtttttgcagGATATTAGAGCACTTTTTCCTTCTGATTACAATCCATTCTATGCTGGTTTTGGAAATAGAGACACAGATGAGCTCAGTTATAGGAAGATTGGGATCCCAAMapped 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|13479791|gb|BG509134.1|BG509134EST: TGATAAGAAGGGCACCTCACGAGTTCAAGATTGCTTGTTTAGAG GATATCAAAAGACTTTTCCCATCTGACTATAATCCATTC
genomic: TGATAAGAAGGGCACCTCACGAGTTCAAGATTGCTTGTTTAGAGgtaactgcca ... tgttatgcagGATATCAAAAGACTTTTCCCATCTGACTATAATCCATTC
EST:
gi|21994257|gb|BQ785785.1|BQ785785EST: TGATAAGAAGGGCACCTCACGAGTTCAAGATTGCTTGTTTAGAG GATATCAAAAGACTTTTCCCATCTGACTATAATCCATTCTACGCTGGATTT
genomic: TGATAAGAAGGGCACCTCACGAGTTCAAGATTGCTTGTTTAGAGgtaactgcca ... tgttatgcagGATATCAAAAGACTTTTCCCATCTGACTATAATCCATTCTACGCTGGATTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaggcttcatcttaccgacattataatacatatggcctaaattattgttatgcagGATATCAAAAGACTTTTCCCATCTGACTATAATCCATTCTACGCTGGATTTGGCAATAGAGATACAGATGAACTTAGTTACAGAAAGATTGGAGTCCCGA
gcctaaa putative branch site (score: 3)
acattataatacatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaactgccacaacacaaaaccatgtcactgtgatatataacagggaatgttattggaaggcttcatcttaccgacattataatacatatggcctaaattattgttatgcagGATATCAAAAGACTTTTCCCATCTGACTATAATCCATTCTACGCTGGATTTGGCAATAGAGATACAGATGAACTTAGTTACAGAAAGATTGGAGTCCCGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG