Sequence
atgc intronic sequence ATGC exonic sequence...catttttcatttttccaagtattgatttctgctcctcataacgtgaaccttgatataatgctggaatctatctttcctttataatttcttctccttgaagGTTGCAAGCCAAGAGACATATGGAACCTTGGGTGCTATTGTCAGAAGCCGAACAGGAAATCGAGAAGTTGGCTTTCTAACAAATCGACATGTAGCTGTTG
Basic information
species | Glycine max |
transcript | GLYMA07G34800.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G34800.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G35155.1 (Arabidopsis thaliana), 3'ss of exon 3
catttttcatttttccaagtattgatttctgctcctcataacgtgaaccttgatataatgctggaatctatctttcctttataatttcttctccttgaagGTTGCAAGCCAAGAGACATATGGAACCTTGGGTGCTATTGTCAGAAGCCGAACAGGAAATCGAGAAGTTGGCTTTCTAACAAATCGACATGTAGCTGTTG
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--------------gtacatcgttgttttttccttccatcttctgcaacc---tataagcgtaaagtctcagttttgtttcatgttg--------tgtagGTTGCAAGCCAAGAAACATATGGAACCTTGGGAGCTATAGTGAAAAGCAGAACAGGTAACCACCAGGTTGGTTTCCTTACCAATCGGCATGTCGCAGTTG
upper sequence: GLYMA07G34800.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G45030.2 (Arabidopsis thaliana), 3'ss of exon 3
catttttcatttttccaagtattgatttctgctcctcataacgtgaaccttgatataatgctggaatctatctttcctttataatttcttctccttgaagGTTGCAAGCCAAGAGACATATGGAACCTTGGGTGCTATTGTCAGAAGCCGAACAGGAAATCGAGAAGTTGGCTTTCTAACAAATCGACATGTAGCTGTTG
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-gtaatttgtgta-ctaaacttgcatatacgcttgtattatcgacaatattacaataatc-----atctggccatgcctc---------tcatcttgtagGTGGCTAGCCAAGAGACATATGGAACCTTAGGTGCAATTGTAAAGAGTAAAACTGGTATCAGACAGGTTGGTTTCCTAACAAACCGGCATGTTGCAGTTG
upper sequence: GLYMA07G34800.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv01s0011g01870.t01 (Vitis vinifera), 3'ss of exon 4
--catttttcatttttc--caagtattgatttctgctcctcataacgtgaaccttgatataatgctggaatctatctttcctttataatttcttctccttgaagGTTGCAAGCCAAGAGACATATGGAACCTTGGGTGCTATTGTCAGAAGCCGAACAGGAAATCGAGAAGTTGGCTTTCTAACAAATCGACATGTAGCTGTTG
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tacacctgaaccttgtcaacaggaatctgtttacacattccattgcttgcatcttcat-cattgct---ttttcaaattgcccaattgcttcttgttcatgcagGTTGCAAGCCAAGAGACATACGGAACCTTGGGTGCTATTGTAAAAAGCCGAACAGGAAACCAACAGGTTGGTTTCCTCACAAATCGGCACGTGGCAGTTGMapped 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|193358960|gb|FK325390.1|FK325390EST: TTGCTGATGGCTTAAGGGGAAGTGATTCATGTGTTGGCTCTGGTTCTCAG GTTGCAAGCCAAGAGACATATGGAACCTTGGGTGCTATTGTCAGAAGACCG
genomic: TTGCTGATGGCTTAAGGGGAAGTGATTCATGTGTTGGCTCTGGTTCTCAGgtacttctac ... ctccttgaagGTTGCAAGCCAAGAGACATATGGAACCTTGGGTGCTATTGTCAGAAG-CCG
EST:
gi|193356586|gb|FK321871.1|FK321871EST: TTGCTGATGGCTTAAGGGGAAGTGATTCATGTGTTGGCTCTGGTTCTCAG GTTGCAAGCCAAGAGACATATGGAACCTTGGGTGCTATTGTCAGAAGCCGA
genomic: TTGCTGATGGCTTAAGGGGAAGTGATTCATGTGTTGGCTCTGGTTCTCAGgtacttctac ... ctccttgaagGTTGCAAGCCAAGAGACATATGGAACCTTGGGTGCTATTGTCAGAAGCCGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaccttgatataatgctggaatctatctttcctttataatttcttctccttgaagGTTGCAAGCCAAGAGACATATGGAACCTTGGGTGCTATTGTCAGAAGCCGAACAGGAAATCGAGAAGTTGGCTTTCTAACAAATCGACATGTAGCTGTTG
ccttgat putative branch site (score: 5)
tctatctttcctttat putative PPT
tttcctttataattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catttttcatttttccaagtattgatttctgctcctcataacgtgaaccttgatataatgctggaatctatctttcctttataatttcttctccttgaagGTTGCAAGCCAAGAGACATATGGAACCTTGGGTGCTATTGTCAGAAGCCGAACAGGAAATCGAGAAGTTGGCTTTCTAACAAATCGACATGTAGCTGTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - ccaagta
- - - - - - - - - - - - - - -tgctcct
- - - - - - - - - - - - - - - - - - - - -cgtgaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgctgga