Sequence
atgc intronic sequence ATGC exonic sequence...gaagtgctttggttgtttgcttgctttgaagtgctttggttctatgctatccttttatatttcatactatctttgacacaagggactaaacattgaacagGTGGGAAGGTGGTCCAACCAAAATTCCATGGTCCTTTAAAGAAGAAGAGACTATGTATCTGCTGGAGGGAAAAGTGAGGGTTACTGTTGAAGGGTCTGTT
Basic information
species | Glycine max |
transcript | GLYMA16G33070.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G33070.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv18s0089g01220.t01 (Vitis vinifera), 3'ss of exon 1
--gaagtgctttggttgtttgcttgctttgaagtgctttggttctatgctatccttttatatttcatactatctttg-acacaagggactaaacattgaacagGTGGGAAGGTGGTCCAACCAAAATTCCATGGTCCTTTAAAGAAGAAGAGACTATGTATCTGCTGGAGGGAAAAGTGAGGGTTACTGTTGAAGGGTCTGTT
|| | || | ||| | | || || | || ||||| | | |||||| | | | || | | | || | |||||||||||| | | ||||| |||| | |||||| | ||| ||| ||||||| ||||||||||||||||||||||||| |||| ||| ||| || |
gtcaaacgtttgagacacatgcaccatctatggtttttc--tactttgcta-cttcatatattatggcatgtttctgtgtatgggctaatattgaatgaacagGTGGGGATGCTCTCCAAGCAAATTCCCATGGACATTTGAAGCTAAAGAGACAATGTATCTGCTGGAGGGAAAAGTGAAGGTTTACTGTGATGGGCATGATMapped 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|193570375|gb|FK525362.1|FK525362EST: AACCCATCTCAGTCTAAACTTACTGATCTTGGAGTCTCAACTTGGCCCAT GTGGGAAGGTGGTCCAACCAAAATTCCAT
genomic: AACCCATCTCAGTCTAAACTTACTGATCTTGGAGTCTCAACTTGGCCCATgtaacttttc ... cattgaacagGTGGGAAGGTGGTCCAACCAAAATTCCAT
EST:
gi|11690172|gb|BF597848.1|BF597848EST: AACCCATCTCAGTCTAAACTCACTGATCTTGGAGTCTCAACTTGGCCCAT GTGGGAAGGTGGTCCAACCAAAATTCCATGGTCCTTTAAAGAAGAAGAGAC
genomic: AACCCATCTCAGTCTAAACTTACTGATCTTGGAGTCTCAACTTGGCCCATgtaacttttc ... cattgaacagGTGGGAAGGTGGTCCAACCAAAATTCCATGGTCCTTTAAAGAAGAAGAGAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctatccttttatatttcatactatctttgacacaagggactaaacattgaacagGTGGGAAGGTGGTCCAACCAAAATTCCATGGTCCTTTAAAGAAGAAGAGACTATGTATCTGCTGGAGGGAAAAGTGAGGGTTACTGTTGAAGGGTCTGTT
gactaaa putative branch site (score: 2)
ttttatatttcatact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaagtgctttggttgtttgcttgctttgaagtgctttggttctatgctatccttttatatttcatactatctttgacacaagggactaaacattgaacagGTGGGAAGGTGGTCCAACCAAAATTCCATGGTCCTTTAAAGAAGAAGAGACTATGTATCTGCTGGAGGGAAAAGTGAGGGTTACTGTTGAAGGGTCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - -gctttgg
- - - - - - - - - gcttgct
- - - - - - - - - - - - - - - - - - - - -ctatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgacaca