Sequence
atgc intronic sequence ATGC exonic sequencegtttgagttggttaagttttgttggtgccattattccattccttacaagttacaaccaaatgaaatatttttcctccctattgttgatgcagATGGGTAAATTTTATGAGCTTTTTGAGATGGATGCACATGTAGGTGCGAAAGAGCTTGACTTGCAGTATATGAAG
Basic information
species | Glycine max |
transcript | GLYMA19G40350.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G40350.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os09g24220.1 (Oryza sativa), 3'ss of exon 4
gtttgagttggttaagttttgttggtgccattattccattccttacaagttacaaccaaatgaaatatttt-tcctccctattgttgatgcagATGGGTAAATTTTATGAGCTTTTTGAGATGGATGCACATGTAGGTGCGAAAGAGCTTGACTTGCAGTATATGAAG---------------------------------------------------------------------------------
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---------gtacaactatattttgtaacagttgtggaatactaa--agttaaggctaccttgtttagtaaatattctatgaatttgaaatagatgggcaaattctatgaattatttgaaatggatgcacatgttggggcaaaggagcttgatcttcagtatatgaaggtagtaaattctcttctgcttattcagTATACTGCTGTCACTGCACAATCCAGCTTTTGTTTTAATTCTTATGGCATAACG
upper sequence: GLYMA19G40350.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G02070.2 (Arabidopsis thaliana), 3'ss of exon 4
gtttgagttggttaagttttgttggtgccattattccattccttacaagttacaaccaaatgaaatatttttcctccctattgttgatgcagATGGGTAAATTTTATGAGCTTTTTGAGATGGATGCACATGTAGGTGCGAAAGAGCTTGACTTGCAGTATATGAAG
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------gtagaacgataattacttatttcgttataac-ttatttattgatgggagattctaggataaatggtcttcttttgtggcaa-gcagATGGGTAAATTCTATGAGCTTTTTGAGATGGATGCACATGTCGGAGCTAAGGAACTGGATATACAATACATGAAG
upper sequence: GLYMA19G40350.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv07s0005g01370.t01 (Vitis vinifera), 3'ss of exon 4
gtttgagttggttaagttttgttggtgccattattccattccttacaagttacaaccaaatga-aatatttttcctccctattgttgatgcagATGGGTAAATTTTATGAGCTTTTTGAGATGGATGCACATGTAGGTGCGAAAGAGCTTGACTTGCAGTATATGAAG
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gtataagataaataaagctaaactatcataaacttgtcagggtcactagt-gcaattaaatgataatattttatct-----ttgttcaaacagATGGGCAAGTTTTATGAACTTTTTGAAATGGATGCGCATATAGGAGCAAAAGAGCTTGATTTGCAATATATGAAG
upper sequence: GLYMA19G40350.1 (Glycine max), 3'ss of exon 4
lower sequence: PP1S152_6V6.1 (Physcomitrella patens), 3'ss of exon 4
--gtttgagttggttaagttttgttggtgccattattccattcctta----caagttacaac--caaatgaaatatttttcctccctattgttgatgcagATGGGTAAATTTTATGAGCTTTTTGAGATGGATGCACATGTAGGTGCGAAAGAGCTTGACTTGCAGTATATGAAG
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atgtccgcagtaaagaaagtactttcgtgtcaagaaatcgttgctagatcttaagatgctatgttcagtgtattgacagctggatcaattctctctgtagATGGGAAAATTCTATGAGATGTTTGAAATGGATGCACATATCGGTGCGAAGGAGCTGGACTTGCAGTATATGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attccttacaagttacaaccaaatgaaatatttttcctccctattgttgatgcagATGGGTAAATTTTATGAGCTTTTTGAGATGGATGCACATGTAGGTGCGAAAGAGCTTGACTTGCAGTATATGAAG
tttttcctccctattg CT-rich tract
aaatgaaatattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgagttggttaagttttgttggtgccattattccattccttacaagttacaaccaaatgaaatatttttcctccctattgttgatgcagATGGGTAAATTTTATGAGCTTTTTGAGATGGATGCACATGTAGGTGCGAAAGAGCTTGACTTGCAGTATATGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT