Sequence
atgc intronic sequence ATGC exonic sequence...ccattgctatatcaatctgttgttttttttatctattaaccatatttggtattccaatattttgaccgaaactgagtattgtgtctttgtttctgttcagGATTTGGCTGTTGTTGTCTTGCTAATACTCATACCTCTTGTTTCACCTAATTCTTCCAAAGGAGGG
Basic information
species | Glycine max |
transcript | GLYMA07G08030.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G08030.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os04g58620.1 (Oryza sativa), 3'ss of exon 8
--ccattgctatatcaatctgttgttttttttatctattaaccatatttggtattccaatattttgaccgaaactgagtattgtgtctttgt-ttctgttcagGATTTGGCTGTTGTTGTCTTGCTAATACTCATACCTCTTGTTTCACCTAATTCTTCCAAAGGAGGG
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tgccatttacaggaaaaaaaatgcattgacctgactagtgttaatgtaatctaagtctttcttctgatagatatt---tgttgtgacatactgttgtatgcagGATTTGGCTGTGGTGGTCCTGTTGATATTAATACCTCTTATATCACCTAATTCTTCAAAAGGAGGG
upper sequence: GLYMA07G08030.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G058948_T01 (Zea mays), 3'ss of exon 7
---ccattgctatatcaatctgttgttttttttatctattaaccatatttggtattccaatattttgaccgaaactgagtattgtgtctttgtttctgttcagGATTTGGCTGTTGTTGTCTTGCTAATACTCATACCTCTTGTTTCACCTAATTCTTCCAAAGGAGGG
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cttgcatggcatactcattctgaagcattgcgagccttcaatcctttagtaatgttaatctagcttgcctt---tttaatatattttctcgtgttgtccccagGATTTGGCTGTGGTGGTCCTGTTGATATTAATACCTCTCATATCACCTAATTCTTCAAAAGGAGGG
upper sequence: GLYMA07G08030.1 (Glycine max), 3'ss of exon 7
lower sequence: AT4G00630.2 (Arabidopsis thaliana), 3'ss of exon 7
ccattgctatatcaatctgttgttttttttatctattaaccatatttggtattccaatattttgaccgaaactgagtattgtgtctttgtt--tctgttcagGATTTGGCTGTTGTTGTCTTGCTAATACTCATACCTCTTGTTTCACCTAATTCTTCCAAAGGAGGG
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--------------gtttgttcagaacacaaagttgttactgcgcttg---tataaaggctatcatgctgggtaactcttttcaatctgttggtcttcacagGATCTGGCTGTGGTCGTGTTACTGATTCTCATCCCACTTATTTCACCTAATTCATCCAAAGGAGGG
upper sequence: GLYMA07G08030.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv15s0046g03390.t01 (Vitis vinifera), 3'ss of exon 6
--ccattgctatatcaatctgttgttttttttatctattaaccat-atttggtattccaatattttgaccgaaactgagtattgtgtctttgtttctgttcagGATTTGGCTGTTGTTGTCTTGCTAATACTCATACCTCTTGTTTCACCTAATTCTTCCAAAGGAGGG
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tttaattatttagtgaaattttgtttatgttgaaatcttgaacatgatttgaaagtttcctttttcttttcatcttggtttttttgttctctttt---ttcagGATTTGGCTGTTGTGGTTCTTCTAATACTCATACCTCTGATTTCACCAAATTCATCTAAAGGAGGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttggtattccaatattttgaccgaaactgagtattgtgtctttgtttctgttcagGATTTGGCTGTTGTTGTCTTGCTAATACTCATACCTCTTGTTTCACCTAATTCTTCCAAAGGAGGG
ttttgac putative branch site (score: 3)
tctttgtttctgttc putative PPT
aatattttga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccattgctatatcaatctgttgttttttttatctattaaccatatttggtattccaatattttgaccgaaactgagtattgtgtctttgtttctgttcagGATTTGGCTGTTGTTGTCTTGCTAATACTCATACCTCTTGTTTCACCTAATTCTTCCAAAGGAGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
ccattgc
- - - - - - - -tctgttg