Sequence
atgc intronic sequence ATGC exonic sequence...aacctaacaagacctattaaatagatctttggttacttcatagtttacatcagatcaatctaatatgtcaatcttattcattatttttctacaaaatcagGTTTTTTGCTTGGTTGCTATGGAAAAACCAGTTTCTCTCAAGCCTGAGCACATTCGGGATGAGAAACTGAAG
Basic information
species | Glycine max |
transcript | GLYMA19G22690.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G22690.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G130230_T03 (Zea mays), 3'ss of exon 9
aacctaacaagacctattaaatagatctttggttacttcatagtttacatcagatcaatctaatatgtcaatcttattcattattt--ttctacaaaat-cagGTTTTTTGCTTGGTTGCTATGGAAAAACCAGTTTCTCTCAAGCCTGAGCACATTCGGGATGAGAAACTGAAG
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--ctgaatcttgtggattaactagccatgacagaatttcctgaatagtagtgagt-attcctttgtgccttgtgcgttaacgacttagtcttacaatctgcagGTTTTCTGTTTGGTTGCAATGGAAAAGCCTGTCTCCCTTAAGCCTGAGCACATCAGAGATGAGAAAGTCAAG
upper sequence: GLYMA19G22690.1 (Glycine max), 3'ss of exon 9
lower sequence: AT5G40760.1 (Arabidopsis thaliana), 3'ss of exon 9
------------------------aacctaacaagacct-attaaatagatctttggttacttcatagtttacatcagatcaatctaatatgtcaatcttattcattatttttctacaaaat------cagGTTTTTTGCTTGGTTGCTATGGAAAAACCAGTTTCTCTCAAGCCTGAGCACATTCGGGATGAGAAACTGAAG
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gcaagtatacctgagatacttttcctgataacaaaacttcattggaaatctatgtgattgtttttcagagtctctctgtaagttcaaatgctttcatgt-attgactaactgagttcataatactctgtagGTTCTTTGCCTTGTTGCCATGGAGAAACCAATATCTCTTAAACCTGAGCATATCCGGGATGAGAAAGTGAAG
upper sequence: GLYMA19G22690.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv14s0171g00490.t01 (Vitis vinifera), 3'ss of exon 9
-aacctaacaagacctattaaatagatctttggttacttcatagtttacatcagatcaatctaatatgtcaatcttattcattatttttctacaaaatcagGTTTTTTGCTTGGTTGCTATGGAAAAACCAGTTTCTCTCAAGCCTGAGCACATTCGGGATGAGAAACTGAAG
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ttttattccatggagtatcatagcaatgtttgaatagaacttgaat-gtatagcctcttcttctttcaatacttacatacgctagttttcactgcttacagGTCCTTTGCCTGGTTGCCATGGAGAAGCCCGTCTCTCTCAAACCTGAGCACATCCGAGATGAGAAAGTGAAG
upper sequence: GLYMA19G22690.1 (Glycine max), 3'ss of exon 9
lower sequence: PP1S192_39V6.4 (Physcomitrella patens), 3'ss of exon 9
aacctaacaagacctattaaatagatctttggttacttcatagtttacatcagatcaatctaatatgtcaatcttattcatta---tttttctacaaaatcagGTTTTTTGCTTGGTTGCTATGGAAAAACCAGTTTCTCTCAAGCCTGAGCACATTCGGGATGAGAAACTGAAG
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-ctctcatactttcgaagctgttga-cgttattggctgtgtgtttaattctacctggataatagtaatcaatgtggctaagaggagtgtctctgtgagg-cagATTCTGTGTCTTTTGGCCATGGAAAAACCAATTTCCCTCAGTCCTGAGCATATTCGGGATGAGAAAGTCAAG
upper sequence: GLYMA19G22690.1 (Glycine max), 3'ss of exon 9
lower sequence: PP1S73_244V6.1 (Physcomitrella patens), 3'ss of exon 7
----------aacctaacaagacctattaaatagatctttggttacttcatagtttacatcagatcaatctaatatgtcaatcttattcattatttttctacaaaatcagGTTTTTTGCTTGGTTGCTATGGAAAAACCAGTTTCTCTCAAGCCTGAGCACATTCGGGATGAGAAACTGAAG
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tataatttggtccttaacaaatccacccagacatatctacgcaaac--cagaacccgttacaga----ttccacaaggcagctaagtggagtgttttat----gaggcagGTGCTGTGCTTGGTGGCCATGGAGAAACCAGTTTCACTAAGTCCGGAGCACATTCGGGATGAGAAAGTCAAGMapped 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|213607196|gb|DB965110.1|DB965110EST: AATTATTCGAGATATAATTCAAAATCATCTGCTACAG GTTTTTTGCTTGGTTGCTATGGAAAAACCAGTTTCTCTCAAGCCTGAGCAC
genomic: AATTATTCGAGATATAATTCAAAATCATCTGCTACAGgtagggtctc ... acaaaatcagGTTTTTTGCTTGGTTGCTATGGAAAAACCAGTTTCTCTCAAGCCTGAGCAC
EST:
gi|209700934|gb|BW661313.1|BW661313EST: AATTATTCGAGATATAATTCAAAATCATCTGCTACAG GTTTTTTGCTTGGTTGCTATGGAAAAACCAGTTTCTCTCAAGCCTGAGCAC
genomic: AATTATTCGAGATATAATTCAAAATCATCTGCTACAGgtagggtctc ... acaaaatcagGTTTTTTGCTTGGTTGCTATGGAAAAACCAGTTTCTCTCAAGCCTGAGCAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacatcagatcaatctaatatgtcaatcttattcattatttttctacaaaatcagGTTTTTTGCTTGGTTGCTATGGAAAAACCAGTTTCTCTCAAGCCTGAGCACATTCGGGATGAGAAACTGAAG
atctaat putative branch site (score: 3)
tttttctac putative PPT
taatatgtcaatctta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aacctaacaagacctattaaatagatctttggttacttcatagtttacatcagatcaatctaatatgtcaatcttattcattatttttctacaaaatcagGTTTTTTGCTTGGTTGCTATGGAAAAACCAGTTTCTCTCAAGCCTGAGCACATTCGGGATGAGAAACTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- cctaaca