Sequence
atgc intronic sequence ATGC exonic sequence...aattccatttgatttctatgtccaccccattctaaaggtgcagacactgctgctctcttgatgctgatataaaaattttgttatatatctgacttcgtagGTTGTTGGGTCGTGTATAGAACATTTGGTAACGAGATGTTTGAGCTTGTAGCATATGAGTTGATGTCAGCCAATGATGCACCAGAAAGGGATCCAATGGA
Basic information
species | Glycine max |
transcript | GLYMA03G40660.1 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G40660.1 (Glycine max), 3'ss of exon 14
lower sequence: LOC_Os07g31460.2 (Oryza sativa), 3'ss of exon 13
-----aattccatttgatttctatgtccaccccattctaa-aggtgcagacactgctgctctcttgatgctgatataaaaattttgttatatatctgacttcgtagGTTGTTGGGTCGTGTATAGAACATTTGGTAACGAGATGTTTGAGCTTGTAGCATATGAGTTGATGTCAGCCAATGATGCACCAGAAAGGGATCCAATGGA
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tcagtattttcatgctgtttaaaagaacatgtgtttcaaatagttataaacataaattttcact-gttcccattata----ttatctaacatagtc-atttttcagGATGTTGGATAATTTACAAGATGCTTGATGGCCAAACTTGCGAGTTGGATTCATATGATTTGATGTCAGCTAATGATGTTCCAGAGAGGGATCCAATGGA
upper sequence: GLYMA03G40660.1 (Glycine max), 3'ss of exon 14
lower sequence: GRMZM2G474236_T01 (Zea mays), 3'ss of exon 6
-aattccatttgatttctatgtccaccccattctaaa-ggtgcagacactgctgctctcttgatgctgatataaaaattttgttatatatctgacttcgtagGTTGTTGGGTCGTGTATAGAACATTTGGTAACGAGATGTTTGAGCTTGTAGCATATGAGTTGATGTCAGCCAATGATGCACCAGAAAGGGATCCAATGGA
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tttttgtgtgcgatgt-tgtaaagatgctgtctaaagtgtttcaagtacacgtgttgaattt-tattgatctgctgtatcggctaacaaaggagttatgcagGATGTTGGCTGATTTATACAATGCAAGATGGCAAAAGTTGCGAGTTGGAGTCATATGATTTGATGTCAGCTAATGATGCTCCAGAGAGGGATCCAATGGA
upper sequence: GLYMA03G40660.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv14s0030g01930.t01 (Vitis vinifera), 3'ss of exon 14
aattccatttga-tttctatgtccaccccattc-taaaggtgcagacactgctgctctcttgatgctgatataaaaattttgttatatatctgacttcgtagGTTGTTGGGTCGTGTATAGAACATTTGGTAACGAGATGTTTGAGCTTGTAGCATATGAGTTGATGTCAGCCAATGATGCACCAGAAAGGGATCCAATGGA---
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-tttatatgagagtttttctctctttatcatccgcacagcctcaagttttaactcacgttt-attatattatgtgttttaataattgaatttggtcttgtagGTTGTTGGATTATATACAAAGTA---AACAATAAGATGCAAGAACTTGTGGCATATGAGTTGATGTCAGCTAATGATGCTCCAGAGAGAGATCCAATGGATTGMapped 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|192309453|gb|FG999834.1|FG999834EST: ATTTGATGGCACCCGAATTTCTAAATGGGAAGAACCAAACGGAGCAAGAG GTTGTTGGGTCGTGTATAGAACATTTGGTAACGAGATGTTTGAGCTTGTAG
genomic: ATTTGATGGCACCCGAATTTCTAAATGGGAAGAACCAAACGGAGCAAGAGgtatagttaa ... gacttcgtagGTTGTTGGGTCGTGTATAGAACATTTGGTAACGAGATGTTTGAGCTTGTAG
EST:
gi|15000214|gb|BI321028.1|BI321028EST: ACCAAACGGAGCAAGAG GTTGTTGGGTTCCG-G-ATAGAACATTTGGTAACGAGATGTTTGAGCTTGT
genomic: ACCAAACGGAGCAAGAGgtatagttaa ... gacttcgtagGTTGTTGGG-T-CGTGTATAGAACATTTGGTAACGAGATGTTTGAGCTTGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actgctgctctcttgatgctgatataaaaattttgttatatatctgacttcgtagGTTGTTGGGTCGTGTATAGAACATTTGGTAACGAGATGTTTGAGCTTGTAGCATATGAGTTGATGTCAGCCAATGATGCACCAGAAAGGGATCCAATGGA
atctgac putative branch site (score: 3)
atataaaaattttgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aattccatttgatttctatgtccaccccattctaaaggtgcagacactgctgctctcttgatgctgatataaaaattttgttatatatctgacttcgtagGTTGTTGGGTCGTGTATAGAACATTTGGTAACGAGATGTTTGAGCTTGTAGCATATGAGTTGATGTCAGCCAATGATGCACCAGAAAGGGATCCAATGGA
- - ccatttg
- - - - - - - - - - -ccacccc
- - - - - - - - - - - - - - - - - - - - cagacac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgctgat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ataaaaa