Sequence
atgc intronic sequence ATGC exonic sequence...tggcttaattatgttacttattttatatcctataatctcataccataattataagtatatgatggcattgcgtctgccctccttttccctggccatgcagGCAGAGTTACTCCAGAGAGTGTAACTTATAGCTTTGGAACCCTTTTGCTTGACCTCCTCAGTGGCAAGCATATTCCTCCAAGCCGT
Basic information
species | Glycine max |
transcript | GLYMA08G01730.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G01730.2 (Glycine max), 3'ss of exon 6
lower sequence: AT5G41260.1 (Arabidopsis thaliana), 3'ss of exon 5
---------------------------------------------------------------------tggcttaattatgttacttattttatatcctataatctcataccataa---ttataagtatatgatggc---------attgcgtctgccctccttttccct----ggccatg------------cagGCAGAGTTACTCCAGAGAGTGTAACTTATAGCTTTGGAACCCTTTTGCTTGACCTCCTCAGTGGCAAGCATATTCCTCCAAGCCGT
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gtatattttgacaaaagattgtgcaaatacctcatcgagtctttcactacctaaattgtttcctgggattatcaaaattttcttgc--aatttataattttccagctgacagctaaggtttcatgaaaacatgaatgctttatttggattgtggctgcttttctgttttttattgggttatgtgtttatttctacagGTCGCGTGACACCTGAAAGTGTAATATACAGCTTTGGAACTCTATTACTTGACCTTCTGAGTGGAAAGCATATACCTCCAAGCCAT
upper sequence: GLYMA08G01730.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv02s0025g03550.t01 (Vitis vinifera), 3'ss of exon 7
tggcttaattatgttacttattttatatcctataatctcata--ccataattataagtatatgatggcattgcgtctgccctccttttccctggccatgcagGCAGAGTTACTCCAGAGAGTGTAACTTATAGCTTTGGAACCCTTTTGCTTGACCTCCTCAGTGGCAAGCATATTCCTCCAAGCCGT
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-gcaatgcatacaatgca-atcttgtattttgagatgtaatgatttttttttgttggttactttgagttccgaaataatcggcattttctgcttttctgcagGAAGGGTAACACCTGAAAGTGTAATGTATAGTTTTGGCACCCTTTTGCTTGACCTTCTCAGTGGAAAACATATTCCTCCAAGCCAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taattataagtatatgatggcattgcgtctgccctccttttccctggccatgcagGCAGAGTTACTCCAGAGAGTGTAACTTATAGCTTTGGAACCCTTTTGCTTGACCTCCTCAGTGGCAAGCATATTCCTCCAAGCCGT
tctgccctccttttcc CT-rich tract
ataagtatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tggcttaattatgttacttattttatatcctataatctcataccataattataagtatatgatggcattgcgtctgccctccttttccctggccatgcagGCAGAGTTACTCCAGAGAGTGTAACTTATAGCTTTGGAACCCTTTTGCTTGACCTCCTCAGTGGCAAGCATATTCCTCCAAGCCGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC